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PR00603

Identifier
CYTOCHROMEC1  [View Relations]  [View Alignment]  
Accession
PR00603
No. of Motifs
8
Creation Date
06-AUG-1996  (UPDATE 28-JUL-1999)
Title
Cytochrome C1 signature
Database References

PROSITE; PS00190 CYTOCHROME_C
BLOCKS; BL00190
INTERPRO; IPR002326
Literature References
1. BECHMANN, G., SCHULTE, U. AND WEISS, H.
Mitochondrial ubiquinol-cytochrome c oxidoreductase. 
IN MOLECULAR MECHANISMS IN BIOENERGETICS, ERNSTER, L. ED., PP.199-216 (1992)
ELSEVIER, AMSTERDAM.
 
2. PRINCE, R.C. AND GEORGE, G.N.
Cytochrome f revealed. 
TRENDS BIOCHEM.SCI. 20 217-218 (1995).
 
3. MOORE, G.R. AND PETTIGREW, G.W.
Cytochromes c. Evolutionary, Structural, and Physicochemical Aspects.
SPRINGER-VERLAG, BERLIN-HEIDELBERG-NEW YORK (1990).
 
4. GRAY, K.A., DAVIDSON, E. AND DALDAL, F.
Mutagenesis of methionine-183 drastically affects the physicochemical
properties of cytochrome c1 of the bc1 complex of Rhodobacter capsulatus.
BIOCHEMISTRY 31 11864-11873 (1992).

Documentation
Cytochrome bc1 complex (ubiquinol:ferricytochrome c oxidoreductase) is 
found in mitochondria, photosynthetic bacteria and other prokaryotes [1].
It is minimally composed of three subunits: cytochrome b, carrying a low- 
and a high-potential haem group; cytochrome c1 (cyt c1); and a high-
potential Rieske iron-sulphur protein. The general function of the complex 
is electron transfer between two mobile redox carriers, ubiquinol and 
cytochrome c; the electron transfer is coupled with proton translocation 
across the membrane, thus generating proton-motive force in the form of an
electrochemical potential that can drive ATP synthesis. In its structure and
functions, the cytochrome bc1 complex bears extensive analogy to the
cytochrome b6f complex of chloroplasts and cyanobacteria; cyt c1 plays an
analogous role to cytochrome f, in spite of their different structures [2]. 
 
CYTOCHROMEC1 is an 8-element fingerprint that provides a signature for cyt
c1. The fingerprint was derived from an initial alignment of 10 sequences:
motif 2 includes two invariant Cys residues that covalently bind the haem
group, and a His residue, which provides the fifth haem iron ligand (cf.
PROSITE pattern CYTOCHROME_C); and motif 6 includes an invariant Met, which
provides the sixth haem iron ligand [3,4]. Two iterations on OWL28.1 were
required to reach convergence, at which point a true set comprising 16
sequences was identified. Three partial matches were also found: A44033 is
a Crithidia fasciculata cyt c1 fragment lacking motifs 7 and 8; and S65505
and S65506 are cyt c1 N-terminal fragments, from C. fasciculata and Bodo
caudatus respectively, which match only the first three motifs.
 
An update on SPTR37_9f identified a true set of 14 sequences, and 3
partial matches.
Summary Information
  14 codes involving  8 elements
1 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
1 codes involving 4 elements
0 codes involving 3 elements
1 codes involving 2 elements
Composite Feature Index
81414141414141414
711111110
600000000
500000000
401110100
300000000
201010000
12345678
True Positives
CY11_SOLTU    CY1_BOVIN     CY1_EUGGR     CY1_HUMAN     
CY1_KLULA CY1_NEUCR CY1_PARDE CY1_RHOCA
CY1_RHORU CY1_RHOSH CY1_YEAST CYB_BRAJA
O59680 P81379
True Positive Partials
Codes involving 7 elements
Q18853
Codes involving 4 elements
Q26325
Codes involving 2 elements
O66458
Sequence Titles
CY11_SOLTU  CYTOCHROME C1, HEME PROTEIN PRECURSOR (CLONE PC13III) - SOLANUM TUBEROSUM (POTATO). 
CY1_BOVIN CYTOCHROME C1, HEME PROTEIN - BOS TAURUS (BOVINE).
CY1_EUGGR CYTOCHROME C1, HEME PROTEIN - EUGLENA GRACILIS.
CY1_HUMAN CYTOCHROME C1, HEME PROTEIN PRECURSOR - HOMO SAPIENS (HUMAN).
CY1_KLULA CYTOCHROME C1, HEME PROTEIN PRECURSOR - KLUYVEROMYCES LACTIS (YEAST).
CY1_NEUCR CYTOCHROME C1, HEME PROTEIN PRECURSOR - NEUROSPORA CRASSA.
CY1_PARDE CYTOCHROME C1 PRECURSOR - PARACOCCUS DENITRIFICANS.
CY1_RHOCA CYTOCHROME C1 PRECURSOR - RHODOBACTER CAPSULATUS (RHODOPSEUDOMONAS CAPSULATA).
CY1_RHORU CYTOCHROME C1 PRECURSOR - RHODOSPIRILLUM RUBRUM.
CY1_RHOSH CYTOCHROME C1 PRECURSOR - RHODOBACTER SPHAEROIDES (RHODOPSEUDOMONAS SPHAEROIDES).
CY1_YEAST CYTOCHROME C1, HEME PROTEIN PRECURSOR - SACCHAROMYCES CEREVISIAE (BAKER'S YEAST).
CYB_BRAJA CYTOCHROME B/C1 [INCLUDES: CYTOCHROME B; CYTOCHROME C1] - BRADYRHIZOBIUM JAPONICUM.
O59680 PROBABLE CYTOCHROME C1, HEME PROTEIN PRECURSOR - SCHIZOSACCHAROMYCES POMBE (FISSION YEAST).
P81379 CYTOCHROME C1 PRECURSOR - RHODOPSEUDOMONAS VIRIDIS.

Q18853 C54G4.8 PROTEIN - CAENORHABDITIS ELEGANS.

Q26325 CYTOCHROME C1, HEME PROTEIN - CRITHIDIA FASCICULATA.

O66458 CYTOCHROME C - AQUIFEX AEOLICUS.
Scan History
OWL28_1    2  100  NSINGLE    
SPTR37_9f 3 50 NSINGLE
Initial Motifs
Motif 1  width=20
Element Seqn Id St Int Rpt
YAWSHNGPFETFDHASIRRG CY1_YEAST 74 74 -
YPWVHEQWLKTFDHQALRRG CY1_NEUCR 83 83 -
YPWSHRGLLSSLDHTSIRRG CY1_HUMAN 94 94 -
YPWSHRGLLSSLDHTSIRRG CY1_BOVIN 10 10 -
YPWPHEGILSSYDHASIRRG CY11_SOLTU 89 89 -
QDWSWKGIFGRYDQPQLQRG CY1_RHORU 34 34 -
LPWPHFQWFQGLDWRSVRRG CY1_EUGGR 9 9 -
HAFSFEGIFGKYDQAQLRRG CY1_RHOCA 28 28 -
ISFSFEGPFGKFDQHQLQRG CY1_PARDE 218 218 -
VPFSFEGPFGTFDQHQLQRG CY1_RHOSH 31 31 -

Motif 2 width=20
Element Seqn Id St Int Rpt
YQVYREVCAACHSLDRVAWR CY1_YEAST 94 0 -
FQVYREVCASCHSLSRVPYR CY1_NEUCR 103 0 -
FQVYKQVCASCHSMDFVAYR CY1_HUMAN 114 0 -
FQVYKQVCSSCHSMDYVAYR CY1_BOVIN 30 0 -
HQVYQQVCASCHSMSLISYR CY11_SOLTU 109 0 -
FQVFHEVCSTCHGMKRVAYR CY1_RHORU 54 0 -
KEVYEQVFAPCHSLSFIKYR CY1_EUGGR 29 0 -
FQVYNEVCSACHGMKFVPIR CY1_RHOCA 48 0 -
LQVYTEVCSACHGLRYVPLR CY1_PARDE 238 0 -
LQVYTEVCAACHGMKFVPIR CY1_RHOSH 51 0 -

Motif 3 width=21
Element Seqn Id St Int Rpt
DEQGNPKKRPGKLSDYIPGPY CY1_YEAST 139 25 -
NDQGEIEKRPGKLSDYLPDPY CY1_NEUCR 148 25 -
NEDGEMFMRPGKLFDYFPKPY CY1_HUMAN 159 25 -
NEDGEMFMRPGKLSDYFPKPY CY1_BOVIN 75 25 -
NDEGEMFTRPGKLSDRFPQPY CY11_SOLTU 154 25 -
DDNGDMFTRPGTPADHIPSPF CY1_RHORU 99 25 -
DEKGEARKRPGKRFDTVVQPY CY1_EUGGR 73 24 -
IDKDSGEERDRKETDMFPTRV CY1_RHOCA 93 25 -
TDPETEEDRPRVPTDHFPTVS CY1_PARDE 282 24 -
TDEETGEDREGKPTDHFPHSA CY1_RHOSH 95 24 -

Motif 4 width=25
Element Seqn Id St Int Rpt
ALPPDLSLIVKARHGGCDYIFSLLT CY1_YEAST 172 12 -
ALPPDLSLIVKARHGGCDYIFSLLT CY1_NEUCR 181 12 -
ALPPDLSYIVRARHGGEDYVFSLLT CY1_HUMAN 192 12 -
ALPPDLSYIVRARHGGEDYVFSLLT CY1_BOVIN 108 12 -
AYPPDLSLITKARHNGQNYVFALLT CY11_SOLTU 187 12 -
AAPPDLSLLAKARPGGPNYIYSLLE CY1_RHORU 132 12 -
ALPPDLSVITNARHGGVDYIYALLT CY1_EUGGR 106 12 -
GMGPDLSVMAKARAGFSGPAGSGMN CY1_RHOCA 116 2 -
GMGPDLSLMAKARAGFHGPYGTGLS CY1_PARDE 305 2 -
ENAADLSLMAKARAGFHGPMGTGIS CY1_RHOSH 117 1 -

Motif 5 width=12
Element Seqn Id St Int Rpt
GSNYNPYFPGGS CY1_YEAST 211 14 -
GLNFNPYFPGTG CY1_NEUCR 220 14 -
GLYFNPYFPGQA CY1_HUMAN 230 13 -
GLYFNPYFPGQA CY1_BOVIN 146 13 -
GLHYNPYFPGGA CY11_SOLTU 225 13 -
AKYFNDYFPGHA CY1_RHORU 186 29 -
TQWYNPYFHGGI CY1_EUGGR 145 14 -
GYYYNKTFQIGG CY1_RHOCA 172 31 -
VLYHNAAFAGNW CY1_PARDE 359 29 -
GFYYNRAFQNGS CY1_RHOSH 175 33 -

Motif 6 width=20
Element Seqn Id St Int Rpt
SIAMARVLFDDMVEYEDGTP CY1_YEAST 222 -1 -
GIAMARVLYDGLVDYEDGTP CY1_NEUCR 231 -1 -
AIAMAPPIYTDVLEFDDGTP CY1_HUMAN 241 -1 -
AIGMAPPIYNEVLEFDDGTP CY1_BOVIN 157 -1 -
AIAMPKMLNDGAVEYEDGIP CY11_SOLTU 236 -1 -
AISMPPPLMDDLITYEDGTA CY1_RHORU 197 -1 -
IIGMPPPLTDDMIEYEDGTP CY1_EUGGR 156 -1 -
WARMPPPLVDDQVTYEDGTP CY1_RHOCA 201 17 -
WIQMAAPLSDDQVTYEDGTP CY1_PARDE 370 -1 -
WIAMPPPLMDDLVEYADGHD CY1_RHOSH 204 17 -

Motif 7 width=20
Element Seqn Id St Int Rpt
ATTSQMAKDVTTFLNWCAEP CY1_YEAST 242 0 -
ASTSQMAKDVVEFLNWAAEP CY1_NEUCR 251 0 -
ATMSQIAKDVCTFLRWASEP CY1_HUMAN 261 0 -
ATMSQVAKDVCTFLRWAAEP CY1_BOVIN 177 0 -
ATEAQMGKDVVSFLSWAAEP CY11_SOLTU 256 0 -
ATKDQMAQDVVAYLNWAAEP CY1_RHORU 217 0 -
ASVPQMAKDVTCFLEWCSNP CY1_EUGGR 176 0 -
ATVDQMAQDVSAFLMWAAEP CY1_RHOCA 221 0 -
ATVDQMATDVAAFLMWTAEP CY1_PARDE 390 0 -
ASVHAMAEDVSAFLMWAAEP CY1_RHOSH 224 0 -

Motif 8 width=16
Element Seqn Id St Int Rpt
PEHDERKRLGLKTVII CY1_YEAST 261 -1 -
PEMDDRKRMGMKVLVV CY1_NEUCR 270 -1 -
PEHDHRKRMGLKMLMM CY1_HUMAN 280 -1 -
PEHDHRKRMGLKMLLM CY1_BOVIN 196 -1 -
PEMEERKLMGFKWIFV CY11_SOLTU 275 -1 -
PELDARKSLGLKVLLF CY1_RHORU 236 -1 -
PWWDERKLLGYKTIAT CY1_EUGGR 195 -1 -
PKLVARKQMGLVAMVM CY1_RHOCA 240 -1 -
PKMMDRKQVGFVSVIF CY1_PARDE 409 -1 -
PKLMARKQAGFTAVMF CY1_RHOSH 243 -1 -
Final Motifs
Motif 1  width=20
Element Seqn Id St Int Rpt
YAWSHNGPFETFDHASIRRG CY1_YEAST 74 74 -
YGWSHNGPLETFDHSSIRRG CY1_KLULA 59 59 -
YPWVHEQWLKTFDHQALRRG CY1_NEUCR 83 83 -
YPWSHRGLLSSLDHTSIRRG CY1_HUMAN 94 94 -
YPWSHRGLLSSLDHTSIRRG CY1_BOVIN 10 10 -
YPWPHEGILSSYDHASIRRG CY11_SOLTU 89 89 -
HDWPQSKVLSGFDHASLRRG O59680 75 75 -
QDWSWKGIFGRYDQPQLQRG CY1_RHORU 34 34 -
NKWSFAGPFGKFDRGALQRG CYB_BRAJA 444 444 -
LPWPHFQWFQGLDWRSVRRG CY1_EUGGR 9 9 -
HAFSFEGIFGKYDQAQLRRG CY1_RHOCA 28 28 -
QSWSFAGPFGQYDKAQLRRG P81379 35 35 -
ISFSFEGPFGKFDQHQLQRG CY1_PARDE 218 218 -
VPFSFEGPFGTFDQHQLQRG CY1_RHOSH 31 31 -

Motif 2 width=20
Element Seqn Id St Int Rpt
YQVYREVCAACHSLDRVAWR CY1_YEAST 94 0 -
YQVYREVCAACHSLDRVAWR CY1_KLULA 79 0 -
FQVYREVCASCHSLSRVPYR CY1_NEUCR 103 0 -
FQVYKQVCASCHSMDFVAYR CY1_HUMAN 114 0 -
FQVYKQVCSSCHSMDYVAYR CY1_BOVIN 30 0 -
HQVYQQVCASCHSMSLISYR CY11_SOLTU 109 0 -
FQVYREVCSACHSLNLIAWR O59680 95 0 -
FQVFHEVCSTCHGMKRVAYR CY1_RHORU 54 0 -
LKVYKEVCASCHGLSYIAFR CYB_BRAJA 464 0 -
KEVYEQVFAPCHSLSFIKYR CY1_EUGGR 29 0 -
FQVYNEVCSACHGMKFVPIR CY1_RHOCA 48 0 -
FQVFQNVCVSCHTLENGGFR P81379 55 0 -
LQVYTEVCSACHGLRYVPLR CY1_PARDE 238 0 -
LQVYTEVCAACHGMKFVPIR CY1_RHOSH 51 0 -

Motif 3 width=21
Element Seqn Id St Int Rpt
DEQGNPKKRPGKLSDYIPGPY CY1_YEAST 139 25 -
DDQGNPKKRPGKLADYVPGPY CY1_KLULA 124 25 -
NDQGEIEKRPGKLSDYLPDPY CY1_NEUCR 148 25 -
NEDGEMFMRPGKLFDYFPKPY CY1_HUMAN 159 25 -
NEDGEMFMRPGKLSDYFPKPY CY1_BOVIN 75 25 -
NDEGEMFTRPGKLSDRFPQPY CY11_SOLTU 154 25 -
DDEGNMFKRPGKLSDFLPPPY O59680 140 25 -
DDNGDMFTRPGTPADHIPSPF CY1_RHORU 99 25 -
NDAGDMFERPGRPADYFPSPF CYB_BRAJA 512 28 -
DEKGEARKRPGKRFDTVVQPY CY1_EUGGR 73 24 -
IDKDSGEERDRKETDMFPTRV CY1_RHOCA 93 25 -
NDKGDPMQRAPKLPDRIPSQY P81379 104 29 -
TDPETEEDRPRVPTDHFPTVS CY1_PARDE 282 24 -
TDEETGEDREGKPTDHFPHSA CY1_RHOSH 95 24 -

Motif 4 width=25
Element Seqn Id St Int Rpt
ALPPDLSLIVKARHGGCDYIFSLLT CY1_YEAST 172 12 -
ALPPDLSLIVKARHGGPDYIFALLT CY1_KLULA 157 12 -
ALPPDLSLIVKARHGGCDYIFSLLT CY1_NEUCR 181 12 -
ALPPDLSYIVRARHGGEDYVFSLLT CY1_HUMAN 192 12 -
ALPPDLSYIVRARHGGEDYVFSLLT CY1_BOVIN 108 12 -
AYPPDLSLITKARHNGQNYVFALLT CY11_SOLTU 187 12 -
AAPPDLSCVVRGRHGGQDYIYSLLT O59680 173 12 -
AAPPDLSLLAKARPGGPNYIYSLLE CY1_RHORU 132 12 -
AAPPDLSLITKARSYGRGFPWFIFD CYB_BRAJA 545 12 -
ALPPDLSVITNARHGGVDYIYALLT CY1_EUGGR 106 12 -
GMGPDLSVMAKARAGFSGPAGSGMN CY1_RHOCA 116 2 -
AVPPDLSVIAKARTFQRGFPWWVTD P81379 137 12 -
GMGPDLSLMAKARAGFHGPYGTGLS CY1_PARDE 305 2 -
ENAADLSLMAKARAGFHGPMGTGIS CY1_RHOSH 117 1 -

Motif 5 width=12
Element Seqn Id St Int Rpt
GSNYNPYFPGGS CY1_YEAST 211 14 -
GANYNPYFPGGS CY1_KLULA 196 14 -
GLNFNPYFPGTG CY1_NEUCR 220 14 -
GLYFNPYFPGQA CY1_HUMAN 230 13 -
GLYFNPYFPGQA CY1_BOVIN 146 13 -
GLHYNPYFPGGA CY11_SOLTU 225 13 -
GMNFNPFFPGTQ O59680 211 13 -
AKYFNDYFPGHA CY1_RHORU 186 29 -
GSYYNKYFPGHA CYB_BRAJA 602 32 -
TQWYNPYFHGGI CY1_EUGGR 145 14 -
GYYYNKTFQIGG CY1_RHOCA 172 31 -
GSFYNKYFPGHI P81379 193 31 -
VLYHNAAFAGNW CY1_PARDE 359 29 -
GFYYNRAFQNGS CY1_RHOSH 175 33 -

Motif 6 width=20
Element Seqn Id St Int Rpt
SIAMARVLFDDMVEYEDGTP CY1_YEAST 222 -1 -
SIAMGRVLFDDLVEYEDGTP CY1_KLULA 207 -1 -
GIAMARVLYDGLVDYEDGTP CY1_NEUCR 231 -1 -
AIAMAPPIYTDVLEFDDGTP CY1_HUMAN 241 -1 -
AIGMAPPIYNEVLEFDDGTP CY1_BOVIN 157 -1 -
AIAMPKMLNDGAVEYEDGIP CY11_SOLTU 236 -1 -
QIAMARPLFDDAVEFEDGTP O59680 222 -1 -
AISMPPPLMDDLITYEDGTA CY1_RHORU 197 -1 -
AIKMPKPLSDGQVTYDDGSP CYB_BRAJA 613 -1 -
IIGMPPPLTDDMIEYEDGTP CY1_EUGGR 156 -1 -
WARMPPPLVDDQVTYEDGTP CY1_RHOCA 201 17 -
IIGMTPPIADGLVTYGDGTP P81379 204 -1 -
WIQMAAPLSDDQVTYEDGTP CY1_PARDE 370 -1 -
WIAMPPPLMDDLVEYADGHD CY1_RHOSH 204 17 -

Motif 7 width=20
Element Seqn Id St Int Rpt
ATTSQMAKDVTTFLNWCAEP CY1_YEAST 242 0 -
ATTSQMAKDVTTFLHWCSEP CY1_KLULA 227 0 -
ASTSQMAKDVVEFLNWAAEP CY1_NEUCR 251 0 -
ATMSQIAKDVCTFLRWASEP CY1_HUMAN 261 0 -
ATMSQVAKDVCTFLRWAAEP CY1_BOVIN 177 0 -
ATEAQMGKDVVSFLSWAAEP CY11_SOLTU 256 0 -
ATTAQAAKDVVNFLHWASEP O59680 242 0 -
ATKDQMAQDVVAYLNWAAEP CY1_RHORU 217 0 -
ATVAQYSKDVTTFLMWTAEP CYB_BRAJA 633 0 -
ASVPQMAKDVTCFLEWCSNP CY1_EUGGR 176 0 -
ATVDQMAQDVSAFLMWAAEP CY1_RHOCA 221 0 -
ETQLQYSKDVAAFLMWAAEP P81379 224 0 -
ATVDQMATDVAAFLMWTAEP CY1_PARDE 390 0 -
ASVHAMAEDVSAFLMWAAEP CY1_RHOSH 224 0 -

Motif 8 width=16
Element Seqn Id St Int Rpt
PEHDERKRLGLKTVII CY1_YEAST 261 -1 -
PEHDERKRLGLKAMIV CY1_KLULA 246 -1 -
PEMDDRKRMGMKVLVV CY1_NEUCR 270 -1 -
PEHDHRKRMGLKMLMM CY1_HUMAN 280 -1 -
PEHDHRKRMGLKMLLM CY1_BOVIN 196 -1 -
PEMEERKLMGFKWIFV CY11_SOLTU 275 -1 -
PELDIRKKMGFQVITV O59680 261 -1 -
PELDARKSLGLKVLLF CY1_RHORU 236 -1 -
PHMEARKRLGFQVFVF CYB_BRAJA 652 -1 -
PWWDERKLLGYKTIAT CY1_EUGGR 195 -1 -
PKLVARKQMGLVAMVM CY1_RHOCA 240 -1 -
PTLDVRKRIGWWVLGF P81379 243 -1 -
PKMMDRKQVGFVSVIF CY1_PARDE 409 -1 -
PKLMARKQAGFTAVMF CY1_RHOSH 243 -1 -