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PR01406

Identifier
BBOXZNFINGER  [View Relations]  [View Alignment]  
Accession
PR01406
No. of Motifs
2
Creation Date
25-APR-2000
Title
B-box zinc finger signature
Database References
PRINTS; PR01407 BUTYPHLNCDUF
PFAM; PF00643 zf-B_box
INTERPRO; IPR002991
Literature References
1. FREEMONT P.S.
The RING finger. A novel protein sequence motif related to the zinc finger.
ANN.N.Y.ACAD.SCI. 684 174-192 (1993). 
 
2. BORDEN, K.L.B. AND FREEMONT, P.S.
The RING finger domain: a recent example of a sequence-structure family.
CURR.OPIN.STRUCT.BIOL. 6 395-401 (1996). 
 
3.SAURIN, A.J., BORDEN, K.L., BODDY, M.N. AND FREEMONT, P.S.
Does this have a familiar RING?
TRENDS BIOCHEM.SCI. 21(6) 208-214 (1996).
 
4. BORDEN, K.L. 
RING fingers and B-boxes: zinc-binding protein-protein interaction domains. 
BIOCHEM.CELL BIOL. 76 351-358 (1998).
 
5. BORDEN, K.L., LALLY, J.M., MARTIN, S.R., O'REILLY, N.J., ETKIN, L.D.
AND FREEMONT, P.S.
Novel topology of a zinc-binding domain from a protein involved in
regulating early Xenopus development. 
EMBO J. 14(23) 5947-5956 (1995).

Documentation
A number of eukaryotic and viral proteins contain a conserved 40-60 residue 
cysteine-rich domain, variously termed a C3HC4 zinc-finger or `RING' finger
[1-3]. The finger binds two atoms of zinc, and is probably involved in
mediating protein-protein interactions. The 3D structure [2,3] of the zinc
ligation system is unique to the RING domain and is referred to as the
"cross-brace" motif, illustrated schematically below:
 
                             x x x     x x x
                            x      x x      x
                           x        x        x
                          x        x x        x
                         C        C   C        C
                        x  \    / x   x \    /  x
                        x    Zn   x   x   Zn    x
                         C /    \ C   H /    \ C
                         x         x x         x
                x x x x x x         x         x x x x x x
 
Several proteins that contain RING fingers also contain a well-conserved
40-residue cysteine-rich domain termed a B-box zinc finger. Often, one or 
two copies of the B-box are associated with a coiled coil domain in addition
to the ring finger, forming a tripartite motif. The tripartite motif is 
found in transcription factors, ribonucleoproteins and proto-oncoproteins, 
but no function has yet been ascribed to the domain [4]. 
 
The solution structure of the B-box motif has been determined by NMR [5]. 
The protein is a monomer, with 2 beta-strands, 2 helical turns and 3
extended loop regions packed in a novel topology [5]. Of 7 potential zinc
ligands, only 4 are used, binding a single zinc atom in a C2-H2 tetrahedral 
arrangement [5]. The B-box structure differs in tertiary fold from all
other known zinc-binding motifs.
 
BBOXZNFINGER is a 2-element fingerprint that provides a signature for 
B-box zinc finger proteins. The fingerprint was derived from an initial 
alignment of 7 sequences: the motifs were drawn from conserved regions
spanning the full length of the finger domain. Five iterations on SPTR37_10f
were required to reach convergence, at which point a true set comprising 33 
sequences was identified. 
Summary Information
33 codes involving  2 elements
Composite Feature Index
23333
12
True Positives
A33_PLEWA     HT2A_HUMAN    O00635        O15344        
O15553 O35418 O60858 O70277
O70583 O75382 O95361 O95604
O95854 O95855 Q09654 Q12899
Q14134 Q15521 Q91431 Q91884
Q91885 Q92021 Q99579 RFP_HUMAN
RFP_MOUSE RO52_HUMAN RO52_MOUSE RPT1_MOUSE
TF1A_HUMAN TF1A_MOUSE TF1B_HUMAN TF1B_MOUSE
Y129_HUMAN
Sequence Titles
A33_PLEWA   ZINC-BINDING PROTEIN A33 - PLEURODELES WALTLII (IBERIAN RIBBED NEWT). 
HT2A_HUMAN ZINC-FINGER PROTEIN HT2A - HOMO SAPIENS (HUMAN).
O00635 SIMILAR TO THE 52KD RO/SSA PROTEIN AND RFP - HOMO SAPIENS (HUMAN).
O15344 PUTATIVE TRANSCRIPTION FACTOR XPRF (MIDLINE 1 FETAL KIDNEY ISOFORM 3) - HOMO SAPIENS (HUMAN).
O15553 PYRIN - HOMO SAPIENS (HUMAN).
O35418 MIDLINE 1 (RING FINGER PROTEIN) - MUS MUSCULUS (MOUSE).
O60858 TUMOR SUPPRESSOR - HOMO SAPIENS (HUMAN).
O70277 RING FINGER PROTEIN - RATTUS NORVEGICUS (RAT).
O70583 MIDLINE 1 (MIDLINE 1 PROTEIN) - MUS MUSCULUS (MOUSE).
O75382 BRAIN EXPRESSED RING FINGER PROTEIN - HOMO SAPIENS (HUMAN).
O95361 ESTROGEN-RESPONSIVE B BOX PROTEIN - HOMO SAPIENS (HUMAN).
O95604 ZINC FINGER PROTEIN - HOMO SAPIENS (HUMAN).
O95854 TRANSCRIPTIONAL INTERMEDIARY FACTOR 1 ALPHA - HOMO SAPIENS (HUMAN).
O95855 TRANSCRIPTIONAL INTERMEDIARY FACTOR 1 GAMMA - HOMO SAPIENS (HUMAN).
Q09654 GTP-BINDING PROTEIN ARD-1 HOMOLOG - CAENORHABDITIS ELEGANS.
Q12899 ACID FINGER PROTEIN - HOMO SAPIENS (HUMAN).
Q14134 ATAXIA-TELANGIECTASIA GROUP D-ASSOCIATED PROTEIN - HOMO SAPIENS (HUMAN).
Q15521 INTERFERON-INDUCED FACTOR GPSTAF50 - HOMO SAPIENS (HUMAN).
Q91431 NUCLEAR FACTOR 7 - XENOPUS LAEVIS (AFRICAN CLAWED FROG).
Q91884 RING FINGER PROTEIN - XENOPUS LAEVIS (AFRICAN CLAWED FROG).
Q91885 RING FINGER PROTEIN - XENOPUS LAEVIS (AFRICAN CLAWED FROG).
Q92021 XNF7=ZINC FINGER NUCLEAR PHOSPHOPROTEIN - XENOPUS LAEVIS (AFRICAN CLAWED FROG).
Q99579 PUT. RING PROTEIN - HOMO SAPIENS (HUMAN).
RFP_HUMAN ZINC-FINGER PROTEIN RFP (RET FINGER PROTEIN) - HOMO SAPIENS (HUMAN).
RFP_MOUSE ZINC-FINGER PROTEIN RFP (RET FINGER PROTEIN) - MUS MUSCULUS (MOUSE).
RO52_HUMAN 52 KD RO PROTEIN (SJOGREN SYNDROME TYPE A ANTIGEN (SS-A)) (RO(SS-A)) - HOMO SAPIENS (HUMAN).
RO52_MOUSE 52 KD RO PROTEIN (SJOGREN SYNDROME TYPE A ANTIGEN (SS-A)) (RO(SS-A)) (RO52) - MUS MUSCULUS (MOUSE).
RPT1_MOUSE DOWN REGULATORY PROTEIN OF INTERLEUKIN 2 RECEPTOR - MUS MUSCULUS (MOUSE).
TF1A_HUMAN TRANSCRIPTION INTERMEDIARY FACTOR 1-ALPHA - HOMO SAPIENS (HUMAN).
TF1A_MOUSE TRANSCRIPTION INTERMEDIARY FACTOR 1-ALPHA - MUS MUSCULUS (MOUSE).
TF1B_HUMAN TRANSCRIPTION INTERMEDIARY FACTOR 1-BETA (NUCLEAR COREPRESSOR KAP-1) (KRAB-ASSOCIATED PROTEIN 1) - HOMO SAPIENS (HUMAN).
TF1B_MOUSE TRANSCRIPTION INTERMEDIARY FACTOR 1-BETA (KRAB-A INTERACTING PROTEIN) (KRIP-1) - MUS MUSCULUS (MOUSE).
Y129_HUMAN HYPOTHETICAL PROTEIN KIAA0129 - HOMO SAPIENS (HUMAN).
Scan History
SPTR37_10f 5  75   NSINGLE    
Initial Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
ELFCRRCRRCVCALCPVL Y129_HUMAN 33 33 -
ELSCDTESPLMCMMCRDY Q09654 191 191 -
RQFCRSCGLVLCEPCREA HT2A_HUMAN 109 109 -
KLYCEQDQMPICVVCDRS RFP_MOUSE 113 113 -
HLFCEKDGKALCWVCAQS RO52_HUMAN 100 100 -
RLFCRKDMMVICWLCERS RPT1_MOUSE 104 104 -
KLFCKDDGTLACVICRDS A33_PLEWA 246 246 -

Motif 2 width=15
Element Seqn Id St Int Rpt
KHSNHNFLPIQDAVG A33_PLEWA 265 1 -
EHRDHSVLPLEEAVE RFP_MOUSE 132 1 -
KHRDHAMVPLEEAAQ RO52_HUMAN 119 1 -
EHRGHQTALIEEVDQ RPT1_MOUSE 123 1 -
AHRGHPVGLALEAAV Y129_HUMAN 52 1 -
RHKGHSHVLIEKEVE Q09654 210 1 -
QPPGHCTLPVKEAAE HT2A_HUMAN 129 2 -
Final Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
NMYCVTDDQLICALCKLV O70583 184 184 -
ELFCQTDQTCICYLCMFQ Q14134 233 233 -
KLYCKDDGTLGCVICRDS Q91431 233 233 -
HLFCEDEGQLICWRCERA O00635 101 101 -
QIFCKEDGKVICWVCELS Q15521 105 105 -
EFYCEACETAMCGECRAG O70277 124 124 -
EFYCEACETAMCGECRAG O75382 124 124 -
YFFCENDAEFLCVFCREG O95604 91 91 -
NIFCLTDMQLICGICATR O60858 103 103 -
ELFCRRCRRCVCALCPVL Y129_HUMAN 33 33 -
ELSCDTESPLMCMMCRDY Q09654 191 191 -
SAFCCPDQQCICQDCCQE O95361 139 139 -
RQFCRSCGLVLCEPCREA HT2A_HUMAN 109 109 -
NMYCVTDDQLICALCKLV O15344 184 184 -
NMYCVTDDQLICALCKLV O35418 184 184 -
KLYCEEDQMPICVVCDRS RFP_HUMAN 104 104 -
KLYCEQDQMPICVVCDRS RFP_MOUSE 113 113 -
KLFCETCDRLTCRDCQLL O95855 285 285 -
KLYCETCDKLTCRDCQLL O95854 232 232 -
KLYCETCDKLTCRDCQLL TF1A_HUMAN 228 228 -
KLYCETCDKLTCRDCQLL TF1A_MOUSE 232 232 -
HLFCEKDGKALCWVCAQS RO52_HUMAN 100 100 -
HLFCEEDGQALCWVCAQS RO52_MOUSE 104 104 -
VLFCESCDTLTCRDCQLN TF1B_HUMAN 218 218 -
VLFCESCDTLTCRDCQLN TF1B_MOUSE 219 219 -
HYFCEDDGKFLCFVCRES Q99579 103 103 -
RLFCRKDMMVICWLCERS RPT1_MOUSE 104 104 -
HYYCEDDGKLLCVMCRES Q12899 110 110 -
LLFCEDHDEPICLICSLS O15553 384 384 -
KLYCKDDGTLSCVICRDS Q92021 232 232 -
EYYCCEDGACICVSCLSN Q91884 148 148 -
KLFCKDDGTLACVICRDS A33_PLEWA 246 246 -
RYHCCEDSVCICVSCCLA Q91885 161 161 -

Motif 2 width=15
Element Seqn Id St Int Rpt
EHREHGTVLLRDVVE O70277 142 0 -
EHRGHSVLPLEEAVE RFP_HUMAN 123 1 -
EHRDHSVLPLEEAVE RFP_MOUSE 132 1 -
EHKEHRYQFLEEAFQ O95855 303 0 -
EHKEHRYQFIEEAFQ O95854 250 0 -
EHKEHRYQFIEEAFQ TF1A_HUMAN 246 0 -
EHKEHRYQFIEEAFQ TF1A_MOUSE 250 0 -
KHRDHAMVPLEEAAQ RO52_HUMAN 119 1 -
KHRDHTRVPIEEAAK RO52_MOUSE 123 1 -
AHKDHQYQFLEDAVR TF1B_HUMAN 236 0 -
AHKDHQYQFLEDAVR TF1B_MOUSE 237 0 -
DHKSHNVSLIEEAAQ Q99579 122 1 -
EHRGHQTALIEEVDQ RPT1_MOUSE 123 1 -
EHRPHTAVLMEKAAQ Q12899 129 1 -
EHQGHRVRPIEEVAL O15553 403 1 -
KHASHNFLPILDAVG Q92021 251 1 -
KHRGHQVELLSEASE Q91884 167 1 -
KHSNHNFLPIQDAVG A33_PLEWA 265 1 -
EHRGHRVELLSEASE Q91885 180 1 -
RHRDHQVAALSERYD O15344 203 1 -
RHRDHQVAALSERYD O35418 203 1 -
RHRDHQVAALSERYD O70583 203 1 -
EHKNHSTVTVEEAKA Q14134 251 0 -
KHASHNFLPILDAIG Q91431 252 1 -
QHKGHTTALVEDVCQ O00635 120 1 -
EHQGHQTFRINEVVK Q15521 124 1 -
AHRGHPVGLALEAAV Y129_HUMAN 52 1 -
EHREHGTVLLRDVVE O75382 142 0 -
THQAHTVGFLDEAIQ O95604 110 1 -
EHTKHVFCSIEDAYA O60858 122 1 -
RHKGHSHVLIEKEVE Q09654 210 1 -
EHSGHTIVSLDAARR O95361 156 -1 -
QPPGHCTLPVKEAAE HT2A_HUMAN 129 2 -