RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10659
(140 letters)
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 67.9 bits (166), Expect = 5e-16
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
D+ L C ICFE A I +C H +C CI K + + +CP C ++ + + + N +L
Sbjct: 20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPD-LKNNRIL 78
Query: 78 NELVQKHK 85
+ELV+
Sbjct: 79 DELVKSLN 86
>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase,
nuclear protein, chromosomal protein, transcription
regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B
Length = 165
Score = 66.2 bits (161), Expect = 8e-15
Identities = 20/67 (29%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 21 DLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLLN 78
+L+CPIC ++++ C H FC CI + K CP C L S+ P+ +
Sbjct: 54 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 113
Query: 79 ELVQKHK 85
L+ K
Sbjct: 114 ALISKIY 120
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 64.7 bits (157), Expect = 2e-14
Identities = 25/108 (23%), Positives = 46/108 (42%), Gaps = 5/108 (4%)
Query: 2 SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKC 61
+ L + +N+L C IC E EA C H+FC CI++ ++ +I+CP C
Sbjct: 45 KMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPIC 104
Query: 62 SASLPDMN-SVFPNFLLNELVQKHKIKSAQDSDGLRDFVASESQNLSL 108
+ S+ + +N++V + + R + E + L
Sbjct: 105 RKDIKSKTYSLVLDNCINKMVNNLSSEVKER----RIVLIRERKAKRL 148
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 61.8 bits (150), Expect = 5e-14
Identities = 13/54 (24%), Positives = 20/54 (37%)
Query: 14 QHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD 67
+P C IC + C H FC+ C+ L +C C +P+
Sbjct: 8 NTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIPE 61
>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase,
ubiquitylation, sumoylation, zinc-FI metal binding
protein; 1.80A {Rattus norvegicus}
Length = 71
Score = 60.6 bits (147), Expect = 1e-13
Identities = 17/66 (25%), Positives = 26/66 (39%), Gaps = 8/66 (12%)
Query: 18 PDNDLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
P + CPIC + E T CGH FC C+ ++ CP C + +
Sbjct: 7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI-NHKR 65
Query: 71 VFPNFL 76
P ++
Sbjct: 66 YHPIYI 71
>2ckl_A Polycomb group ring finger protein 4; BMI1, RING1B, polycomb,
E3-ligase, nuclear protein, chromosomal protein,
transcription regulation; 2.0A {Mus musculus} PDB:
3rpg_B 2h0d_A
Length = 108
Score = 61.0 bits (148), Expect = 2e-13
Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVF---PN 74
+ L+C +C +A I C H+FC +CI + +E CP C + + +
Sbjct: 13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLLNIRSD 72
Query: 75 FLLNELVQK 83
L ++V K
Sbjct: 73 KTLQDIVYK 81
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 60.2 bits (146), Expect = 2e-13
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 16 SPPDNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
S +LC IC + +A IT C HTFC SCI + +CPKC+ +
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQP 65
>3hct_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL
conjugation, UBL conjugation pathway; 2.10A {Homo
sapiens} PDB: 3hcu_A 2eci_A 2jmd_A
Length = 118
Score = 61.4 bits (149), Expect = 2e-13
Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 2/73 (2%)
Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFPN 74
P ++ CPIC +REA T CGH FC +CI K + + KCP + L N +FP+
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL-LENQLFPD 71
Query: 75 FLLNELVQKHKIK 87
+ +K
Sbjct: 72 NFAKREILSLMVK 84
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 60.2 bits (146), Expect = 3e-13
Identities = 17/68 (25%), Positives = 26/68 (38%), Gaps = 4/68 (5%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVF-PNFLL 77
+ C IC + + +T+C H FC SC + +C C +F P L
Sbjct: 13 EIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQ---PTGGIFNPAKEL 69
Query: 78 NELVQKHK 85
+QK
Sbjct: 70 MAKLQKSG 77
>3fl2_A E3 ubiquitin-protein ligase UHRF1; cell cycle, DNA damage, DNA
repair, ring finger domain, metal binding, DNA
replication; 1.75A {Homo sapiens}
Length = 124
Score = 60.8 bits (147), Expect = 5e-13
Identities = 17/79 (21%), Positives = 28/79 (35%), Gaps = 1/79 (1%)
Query: 6 TPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSAS 64
+ S + C C EL+ T C H C C+ + Q+ CP C
Sbjct: 37 ASGSPFQLFLSKVEETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYD 96
Query: 65 LPDMNSVFPNFLLNELVQK 83
L ++ N L ++ +
Sbjct: 97 LGRSYAMQVNQPLQTVLNQ 115
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 58.6 bits (142), Expect = 7e-13
Identities = 16/63 (25%), Positives = 25/63 (39%), Gaps = 8/63 (12%)
Query: 21 DLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFP 73
+ CPIC + E T CGH FC C+ ++ CP C + + P
Sbjct: 3 MVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI-NHKRYHP 61
Query: 74 NFL 76
++
Sbjct: 62 IYI 64
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 58.6 bits (142), Expect = 8e-13
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSASLPDMNSVF 72
++ C C ++ T CGH FC SC++ + KC C S+ + VF
Sbjct: 10 KTVEDKYKCEKCHLVLCSPKQTECGHRFCESCMAALLSSSSPKCTACQESI-VKDKVF 66
>3lrq_A E3 ubiquitin-protein ligase TRIM37; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; HET: MSE; 2.29A {Homo
sapiens}
Length = 100
Score = 58.7 bits (142), Expect = 1e-12
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 3/69 (4%)
Query: 19 DNDLLCPICFELIREAHI-TRCGHTFCFSCISKCVELQ-IKCPKCSASLPDMNSVFPNFL 76
C IC E +R+A + C CFSCI + + Q +CP C A L + +
Sbjct: 20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ-LRELVNCRW 78
Query: 77 LNELVQKHK 85
E+ Q+
Sbjct: 79 AEEVTQQLD 87
>1z6u_A NP95-like ring finger protein isoform B; structural genomics
consortium, ligase, ubiquitin-protein ligase, cell cycle
regulation, SGC; 2.10A {Homo sapiens}
Length = 150
Score = 58.5 bits (141), Expect = 5e-12
Identities = 18/65 (27%), Positives = 28/65 (43%), Gaps = 1/65 (1%)
Query: 20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLLN 78
+C C EL+ + T C H C C+ + + Q+ CP C L + PN +L
Sbjct: 77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEILQ 136
Query: 79 ELVQK 83
L+
Sbjct: 137 TLLDL 141
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 56.3 bits (136), Expect = 1e-11
Identities = 19/77 (24%), Positives = 38/77 (49%), Gaps = 3/77 (3%)
Query: 17 PPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIK--CPKCSASLPDMNSVFP 73
P ++LLC IC +++ +A + CG+++C CI + + CP C + +++
Sbjct: 9 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVSPDALIA 68
Query: 74 NFLLNELVQKHKIKSAQ 90
N L + V K ++
Sbjct: 69 NKFLRQAVNNFKNETGY 85
>1jm7_B BARD1, BRCA1-associated ring domain protein 1; ring finger,
zinc-binding protein, heterodimer, ubiquitin ligase,
antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 117
Score = 56.1 bits (135), Expect = 2e-11
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 4/68 (5%)
Query: 19 DNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
+ L C C ++RE + C H FC +C+S C + CP C + + N L
Sbjct: 20 EKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDC--IGTGCPVCYTPAW-IQDLKINRQL 76
Query: 78 NELVQKHK 85
+ ++Q
Sbjct: 77 DSMIQLCS 84
>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA
damage, chromatin regulator, chromosomal protein, DNA
repair, metal-binding; 2.12A {Homo sapiens}
Length = 115
Score = 55.7 bits (134), Expect = 3e-11
Identities = 21/75 (28%), Positives = 29/75 (38%), Gaps = 7/75 (9%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFP-- 73
P ++ C IC E++ E C HT C C VE + CP C +
Sbjct: 11 PSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRR 70
Query: 74 ----NFLLNELVQKH 84
N L ++QKH
Sbjct: 71 NSLVNVELWTIIQKH 85
>3knv_A TNF receptor-associated factor 2; cross-brace, alternative
splicing, apoptosis, cytoplasm, metal-binding, UBL
conjugation, zinc, zinc-finger; 1.90A {Homo sapiens}
Length = 141
Score = 56.3 bits (135), Expect = 3e-11
Identities = 21/104 (20%), Positives = 37/104 (35%), Gaps = 18/104 (17%)
Query: 2 SATSTPSRSLKRQHS---------PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV 52
+A+ TP SL+ + LC C ++R +CGH +C C++ +
Sbjct: 3 AASVTPPGSLELLQPGFSKTLLGTKLEAKYLCSACRNVLRRPFQAQCGHRYCSFCLASIL 62
Query: 53 -ELQIKCPKC--------SASLPDMNSVFPNFLLNELVQKHKIK 87
C C S+ + +S FP+ V+
Sbjct: 63 SSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESLPAV 106
>1jm7_A BRCA1, breast cancer type 1 susceptibility protein; ring finger,
zinc-binding protein, heterodimer, ubiquitin ligase,
antitumor; NMR {Homo sapiens} SCOP: g.44.1.1
Length = 112
Score = 55.5 bits (134), Expect = 3e-11
Identities = 26/77 (33%), Positives = 39/77 (50%), Gaps = 5/77 (6%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKCSASLPDMNSVFPNFLL 77
L CPIC ELI+E T+C H FC C+ K + + +CP C + S+ +
Sbjct: 21 ILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDIT-KRSLQESTRF 79
Query: 78 NELVQK-HKIKSAQDSD 93
++LV++ KI A D
Sbjct: 80 SQLVEELLKIICAFQLD 96
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 53.4 bits (128), Expect = 9e-11
Identities = 16/55 (29%), Positives = 22/55 (40%), Gaps = 7/55 (12%)
Query: 18 PDNDLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
P + CPIC + E T CGH FC C+ ++ CP C +
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 53.5 bits (129), Expect = 1e-10
Identities = 22/69 (31%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK------CPKCSASLPDMNSVFP 73
++ CPIC EL++E C H+FC +CI+ E CP C P N P
Sbjct: 18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK-P 76
Query: 74 NFLLNELVQ 82
N + +V+
Sbjct: 77 NLHVANIVE 85
>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc
binuclear cluster, zinc finger, DNA-binding protein;
2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1
Length = 116
Score = 54.2 bits (130), Expect = 1e-10
Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 1/73 (1%)
Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPN 74
+ + C IC ++ + T C H FC CI +C+++ CP C + P
Sbjct: 18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPV 77
Query: 75 FLLNELVQKHKIK 87
++ +K
Sbjct: 78 KSFLNILNSLMVK 90
>3hcs_A TNF receptor-associated factor 6; cross-brace, beta-BETA-alpha,
coiled coil, cytoplasm, metal- binding, UBL
conjugation, UBL conjugation pathway; 2.20A {Homo
sapiens}
Length = 170
Score = 55.1 bits (132), Expect = 2e-10
Identities = 25/73 (34%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPN 74
P ++ CPIC +REA T CGH FC +CI K + KCP + L N +FP+
Sbjct: 13 PPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEIL-LENQLFPD 71
Query: 75 FLLNELVQKHKIK 87
+ +K
Sbjct: 72 NFAKREILSLMVK 84
>2egp_A Tripartite motif-containing protein 34; ZF-C3HC4 domain,
tripartite motif protein 34, interferon- responsive
finger protein 1; NMR {Homo sapiens}
Length = 79
Score = 51.9 bits (125), Expect = 3e-10
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 15/87 (17%)
Query: 3 ATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK----- 57
+S S +++ ++ CPIC EL+ E CGH+ C +CI+ + +
Sbjct: 1 GSSGSSGNVQ-------EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGK 53
Query: 58 --CPKCSASLPDMNSVFPNFLLNELVQ 82
CP C S + + N L +V+
Sbjct: 54 SSCPVCGISYSFEH-LQANQHLANIVE 79
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 51.5 bits (124), Expect = 7e-10
Identities = 20/68 (29%), Positives = 33/68 (48%), Gaps = 7/68 (10%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK------CPKCSASLPDMNSVFPN 74
++ CPIC EL+ + CGH+FC +C++ + + CP C S N PN
Sbjct: 19 EVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR-PN 77
Query: 75 FLLNELVQ 82
+ +V+
Sbjct: 78 RHVANIVE 85
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin
ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB:
2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A
2ldr_A*
Length = 389
Score = 53.2 bits (127), Expect = 2e-09
Identities = 16/72 (22%), Positives = 26/72 (36%), Gaps = 1/72 (1%)
Query: 4 TSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCS 62
+ LC IC E ++ I CGH C SC++ E + + CP C
Sbjct: 315 IKVTQEQYELYCEMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
Query: 63 ASLPDMNSVFPN 74
+ + +
Sbjct: 375 CEIKGTEPIVVD 386
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 49.3 bits (118), Expect = 3e-09
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 10/70 (14%)
Query: 3 ATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCP 59
A+ L+ + ++CPIC +++++ CGH FC CI++ E KCP
Sbjct: 9 ASGQFVNKLQEE-------VICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCP 61
Query: 60 KCSASLPDMN 69
C S+
Sbjct: 62 LCKTSVRKNA 71
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 48.5 bits (116), Expect = 5e-09
Identities = 16/45 (35%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 20 NDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKC 61
+++CPIC +++++ CGH FC CI++ E KCP C
Sbjct: 19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 48.5 bits (116), Expect = 5e-09
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 3/45 (6%)
Query: 22 LLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLP 66
L C C + + C HT C C+ ++CP C A P
Sbjct: 7 LRCQQCQAEAKCPKLLPCLHTLCSGCLEA---SGMQCPICQAPWP 48
>2yur_A Retinoblastoma-binding protein 6; P53-associated cellular protein
of testis, proliferation potential-related protein,
protein P2P-R; NMR {Homo sapiens}
Length = 74
Score = 49.0 bits (117), Expect = 5e-09
Identities = 15/53 (28%), Positives = 27/53 (50%), Gaps = 3/53 (5%)
Query: 17 PPDNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQ--IKCPKCSASLP 66
P ++LLC IC +++ +A + CG+++C CI + CP C +
Sbjct: 11 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDV 63
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 48.2 bits (115), Expect = 9e-09
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 1/52 (1%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
++ C IC + R I C H+FC CI K + CP C + N
Sbjct: 13 TDEEECCICMDG-RADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE 63
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 47.7 bits (114), Expect = 9e-09
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 10/63 (15%)
Query: 2 SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKC 58
S +S +L+ + C +C E ++E I CGH FC +CI++ E C
Sbjct: 3 SGSSGALENLQ-------VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPC 55
Query: 59 PKC 61
P C
Sbjct: 56 PVC 58
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 47.0 bits (112), Expect = 2e-08
Identities = 17/70 (24%), Positives = 24/70 (34%), Gaps = 4/70 (5%)
Query: 18 PDNDLLCPICFELIRE-AHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFL 76
CPIC E + C H FC+ CI++ + CP C + SV
Sbjct: 2 ATVAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKV---PVESVVHTIE 58
Query: 77 LNELVQKHKI 86
+ I
Sbjct: 59 SDSEFGDQLI 68
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 47.0 bits (112), Expect = 3e-08
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 9/71 (12%)
Query: 22 LLCPICFELIREAHITR----CGHTFCFSCISKCVELQ---IKCPKCSA--SLPDMNSVF 72
L CPIC E E + CGHT C C+ K + ++CP CS + + +
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQLT 75
Query: 73 PNFLLNELVQK 83
N + +
Sbjct: 76 DNLTVLKSGPS 86
>1t1h_A Gspef-atpub14, armadillo repeat containing protein; ubiquitin
ligase, E3 ligase, U-BOX,; NMR {Arabidopsis thaliana}
SCOP: g.44.1.2
Length = 78
Score = 46.8 bits (112), Expect = 4e-08
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 3/74 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVEL-QIKCPKCSASLPDMNSVFPNF 75
P+ CPI EL+++ I G T+ S I K ++ CPK +L + PN+
Sbjct: 5 FPE-YFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG-LTPNY 62
Query: 76 LLNELVQKHKIKSA 89
+L L+ +
Sbjct: 63 VLKSLIALWCESNG 76
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 47.9 bits (113), Expect = 4e-08
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 7/58 (12%)
Query: 16 SPPDNDLLCPICFELIREAH-------ITRCGHTFCFSCISKCVELQIKCPKCSASLP 66
+ + CPIC + E T CGH FC C+ ++ CP C +
Sbjct: 2 AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59
Score = 39.4 bits (91), Expect = 6e-05
Identities = 16/76 (21%), Positives = 26/76 (34%), Gaps = 8/76 (10%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIRE-------AHITRCGHTFCFSCISKCVELQIKCPK 60
+ + CPIC + E T CGH FC C+ ++ CP
Sbjct: 59 NHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 118
Query: 61 CSASLPDMNSVFPNFL 76
C + + P ++
Sbjct: 119 CRKKI-NHKRYHPIYI 133
>2yu4_A E3 SUMO-protein ligase NSE2; SP-ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 94
Score = 45.3 bits (107), Expect = 2e-07
Identities = 17/82 (20%), Positives = 33/82 (40%), Gaps = 9/82 (10%)
Query: 21 DLLCPICFELIREAHI-TRCGHTFCFSCI------SKCVELQIKCPK--CSASLPDMNSV 71
CPI E +++ CGHT+ I + + + CP+ CS + + +
Sbjct: 7 GFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRKSDL 66
Query: 72 FPNFLLNELVQKHKIKSAQDSD 93
+ L ++ H K + S+
Sbjct: 67 IQDEALRRAIENHNKKRHRHSE 88
>2cs3_A Protein C14ORF4, MY039 protein; ZF-C3HC4 domain, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: g.44.1.3
Length = 93
Score = 44.4 bits (104), Expect = 4e-07
Identities = 19/84 (22%), Positives = 30/84 (35%), Gaps = 9/84 (10%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIREAHITRC----GHTFCFSCISKCVELQ-----IKC 58
S L C IC E + + H +C H FCF C + ++ Q + C
Sbjct: 2 SSGSSGSPMANSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYC 61
Query: 59 PKCSASLPDMNSVFPNFLLNELVQ 82
P ++V F+ E+
Sbjct: 62 PSGEKCPLVGSNVPWAFMQGEIAT 85
>3htk_C E3 SUMO-protein ligase MMS21; SUMO E3 ligase, SPL-ring, ring,
ATP-binding, chromosomal protein, coiled coil, DNA
damage; 2.31A {Saccharomyces cerevisiae}
Length = 267
Score = 45.7 bits (107), Expect = 7e-07
Identities = 18/78 (23%), Positives = 32/78 (41%), Gaps = 6/78 (7%)
Query: 21 DLLCPICFELIREAHI-TRCGHTFCFSCISKCVEL--QIKCPK--CSASLPDMNSVFPNF 75
+L CPI + I +C H F I ++ CP+ CS + M +
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVS-MRDFVRDP 239
Query: 76 LLNELVQKHKIKSAQDSD 93
++ + K+K +Q+ D
Sbjct: 240 IMELRCKIAKMKESQEQD 257
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 74
Score = 42.6 bits (100), Expect = 1e-06
Identities = 15/63 (23%), Positives = 25/63 (39%), Gaps = 3/63 (4%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIREAH-ITRCGHTFCFSCISKCVELQ--IKCPKCSAS 64
S + + PD +C IC L+ + CG C++K + +CP C+
Sbjct: 2 SSGSSGRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61
Query: 65 LPD 67
P
Sbjct: 62 WPH 64
>2ecm_A Ring finger and CHY zinc finger domain- containing protein 1;
RCHY1, ring domain, zinc-binding domain, structural
genomics, NPPSFA; NMR {Mus musculus} PDB: 2jrj_A
Length = 55
Score = 41.9 bits (99), Expect = 1e-06
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 4/52 (7%)
Query: 18 PDNDLLCPICFELIRE----AHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
CPIC E I AH+ CGH +C + ++ +CP CS
Sbjct: 2 SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53
>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG,
structural genomics, PSI-2, protein struc initiative;
NMR {Homo sapiens}
Length = 91
Score = 42.7 bits (101), Expect = 2e-06
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 3/63 (4%)
Query: 7 PSRSLKRQHSPPDNDLLCPIC---FELIREAHITRCGHTFCFSCISKCVELQIKCPKCSA 63
P + H ++ CPIC + A C H F C+S ++ CP C
Sbjct: 26 PEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRC 85
Query: 64 SLP 66
P
Sbjct: 86 MFP 88
>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3
ligase, ubiquitinylation, TPR, heat-shock protein
complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2
Length = 281
Score = 44.9 bits (106), Expect = 2e-06
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 3/73 (4%)
Query: 12 KRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKC-PKCSASLPDMNS 70
+++ PD L I FEL+RE IT G T+ I + ++ P + L
Sbjct: 200 RKKRDIPD-YLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPL-TQEQ 257
Query: 71 VFPNFLLNELVQK 83
+ PN + E++
Sbjct: 258 LIPNLAMKEVIDA 270
>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase,
UBL conjugation pathway; NMR {Mus musculus}
Length = 85
Score = 41.6 bits (98), Expect = 4e-06
Identities = 13/66 (19%), Positives = 22/66 (33%), Gaps = 2/66 (3%)
Query: 18 PDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLL 77
PD + P+ L+ + G S I + + P L + + P L
Sbjct: 12 PD-EFRDPLMDTLMTDPVRLPSGTVMDRSIILRHLLNSPTDPFNRQMLT-ESMLEPVPEL 69
Query: 78 NELVQK 83
E +Q
Sbjct: 70 KEQIQA 75
>2kre_A Ubiquitin conjugation factor E4 B; U-box domain, E3 ubiquitin
ligase, E4 polyubiquitin chain EL factor,
phosphoprotein, UBL conjugation pathway; NMR {Homo
sapiens} PDB: 3l1x_A 3l1z_B
Length = 100
Score = 42.0 bits (99), Expect = 4e-06
Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 2/67 (2%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFL 76
PD + P+ L+ + G S I + + P +L + + P
Sbjct: 26 APD-EFRDPLMDTLMTDPVRLPSGTIMDRSIILRHLLNSPTDPFNRQTL-TESMLEPVPE 83
Query: 77 LNELVQK 83
L E +Q
Sbjct: 84 LKEQIQA 90
>1wim_A KIAA0161 protein; ring finger domain, UBCM4-interacting protein
4, UIP4, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.44.1.1
Length = 94
Score = 41.4 bits (97), Expect = 5e-06
Identities = 17/87 (19%), Positives = 30/87 (34%), Gaps = 16/87 (18%)
Query: 24 CPICFELIREAHITR---CGHTFCFSC--------ISKCVELQIKCP--KCSASLPDMNS 70
C +C +T C FC C I + +E I CP C +
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDAACPKQGHLQEN 67
Query: 71 VFPNFLLNELVQKH---KIKSAQDSDG 94
+ E++Q++ + + + S G
Sbjct: 68 EIECMVAAEIMQRYKKLQFERSGPSSG 94
>1v87_A Deltex protein 2; ring-H2 domain, zinc-binding domain, notch
signaling, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: g.44.1.1
Length = 114
Score = 40.2 bits (93), Expect = 2e-05
Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 25/79 (31%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIREA------------------HITRCGHTFCFSCIS 49
+ + P+ D C IC E + A +T+C H F C+
Sbjct: 14 RKYTEELKVAPEED--CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLL 71
Query: 50 KCVELQ-----IKCPKCSA 63
++CP C
Sbjct: 72 AMYCNGNKDGSLQCPSCKT 90
>1g25_A CDK-activating kinase assembly factor MAT1; ring finger (C3HC4),
metal binding protein; NMR {Homo sapiens} SCOP:
g.44.1.1
Length = 65
Score = 38.8 bits (90), Expect = 3e-05
Identities = 15/52 (28%), Positives = 20/52 (38%), Gaps = 6/52 (11%)
Query: 20 NDLLCPICFELI-----REAHITRCGHTFCFSCISKCVEL-QIKCPKCSASL 65
+D CP C + + CGHT C SC+ CP+C L
Sbjct: 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 38.5 bits (89), Expect = 5e-05
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 5/65 (7%)
Query: 13 RQHSPPDNDLLCPICFELIREAHIT----RCGHTFCFSCISKCV-ELQIKCPKCSASLPD 67
R ++ + CP+C E + I CG+ C C + + CP C P+
Sbjct: 3 RSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPE 62
Query: 68 MNSVF 72
+V+
Sbjct: 63 DPAVY 67
>3m62_A Ubiquitin conjugation factor E4; armadillo-like repeats, UBL
conjugation pathway, DNA damage, nucleus,
phosphoprotein; HET: 1PE; 2.40A {Saccharomyces
cerevisiae} PDB: 3m63_A* 2qiz_A 2qj0_A
Length = 968
Score = 40.5 bits (94), Expect = 7e-05
Identities = 11/64 (17%), Positives = 22/64 (34%), Gaps = 2/64 (3%)
Query: 21 DLLCPICFELIREAHITRC-GHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNE 79
+ L P+ + ++++ I S I + P L + V PN L +
Sbjct: 891 EFLDPLMYTIMKDPVILPASKMNIDRSTIKAHLLSDSTDPFNRMPL-KLEDVTPNEELRQ 949
Query: 80 LVQK 83
+
Sbjct: 950 KILC 953
>2ect_A Ring finger protein 126; metal binding protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Mus musculus}
Length = 78
Score = 37.4 bits (87), Expect = 1e-04
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 3/55 (5%)
Query: 19 DNDLLCPIC---FELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
+ L CP+C + L C H F SCI +E CP C SL N+
Sbjct: 13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT 67
>1wgm_A Ubiquitin conjugation factor E4A; ubiquitinating enzyme,
KIAA0126, structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Homo
sapiens} SCOP: g.44.1.2
Length = 98
Score = 36.3 bits (84), Expect = 4e-04
Identities = 19/81 (23%), Positives = 32/81 (39%), Gaps = 7/81 (8%)
Query: 17 PPDNDLLCPICFELIREAHITRCGH-TFCFSCISKCVELQIKCPKCSASLPDMNSVFPNF 75
D + L PI L+ + + T S I++ + P + L M+ + PN
Sbjct: 19 ACD-EFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLSDQTDPFNRSPLT-MDQIRPNT 76
Query: 76 LLNELVQ----KHKIKSAQDS 92
L E +Q + K +S S
Sbjct: 77 ELKEKIQRWLAERKQQSGPSS 97
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 35.5 bits (82), Expect = 5e-04
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 19 DNDLLCPIC---FELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNS 70
+ LC +C F+ E I C H F C+ K +E++ CP C+ + +
Sbjct: 13 NLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ 67
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 35.6 bits (82), Expect = 6e-04
Identities = 11/45 (24%), Positives = 17/45 (37%), Gaps = 4/45 (8%)
Query: 21 DLLCPICFELIREAHITR----CGHTFCFSCISKCVELQIKCPKC 61
C C ++ C H+F C+S V+ +CP C
Sbjct: 26 MDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLC 70
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 37.0 bits (85), Expect = 0.001
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 18 PDNDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQ--IKCPKCSASLPDM 68
PD +C IC L+ + CG C++K + +CP C+ P
Sbjct: 177 PDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHE 230
>2bay_A PRE-mRNA splicing factor PRP19; U-BOX, ubiquitin ligase, E3
ligase; 1.50A {Saccharomyces cerevisiae} SCOP: g.44.1.2
PDB: 1n87_A
Length = 61
Score = 34.6 bits (80), Expect = 0.001
Identities = 8/41 (19%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 20 NDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQIKCP 59
+ +LC I ++ R ++ F S + + V+ P
Sbjct: 2 SHMLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDP 42
>2vje_B MDM4 protein; proto-oncogene, phosphorylation, alternative
splicing, HOST-virus interaction, UBL conjugation
pathway, zinc-finger, polymorphism; HET: FLC; 2.20A
{Homo sapiens} PDB: 2vjf_B*
Length = 63
Score = 34.4 bits (79), Expect = 0.001
Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 23 LCPICFELIREAHI--TRCGHTF-CFSCISKCVELQIKCPKC 61
C +C + R+ +I R GH CF C + + CP C
Sbjct: 9 PCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPIC 50
>2f42_A STIP1 homology and U-box containing protein 1; chaperone; 2.50A
{Danio rerio} PDB: 2c2v_S 2oxq_C
Length = 179
Score = 35.4 bits (81), Expect = 0.002
Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 3/67 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNF 75
PD L I FEL+RE IT G T+ I + ++ P + L + + PN
Sbjct: 103 IPD-YLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQ-DQLIPNL 160
Query: 76 LLNELVQ 82
+ E++
Sbjct: 161 AMKEVID 167
>2vje_A E3 ubiquitin-protein ligase MDM2; proto-oncogene,
phosphorylation, alternative splicing, HOST-virus
interaction, UBL conjugation pathway, zinc-finger,
polymorphism; HET: FLC; 2.20A {Homo sapiens} PDB:
2vjf_A* 2hdp_A
Length = 64
Score = 32.9 bits (75), Expect = 0.005
Identities = 14/48 (29%), Positives = 19/48 (39%), Gaps = 3/48 (6%)
Query: 17 PPDNDLLCPICFELIREAHI--TRCGHTF-CFSCISKCVELQIKCPKC 61
P + C IC + I + GH CF+C K + CP C
Sbjct: 4 PLNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVC 51
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 32.8 bits (75), Expect = 0.007
Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 3/60 (5%)
Query: 2 SATSTPSRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKC 61
S + S + Q + LC IC + CGH C +C E KCP C
Sbjct: 6 SGSLQKEISTEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVT--C-KQCAEAVDKCPMC 62
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 34.3 bits (78), Expect = 0.007
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 1 MSATSTPSRSLKRQHSPPDNDLLCPIC----FELIREAHITRCGHTFCFSC 47
M+ S R+ +R + + L CP C +++ G C C
Sbjct: 2 MTRESIDKRAGRRGPNL-NIVLTCPECKVYPPKIVERF---SEGDVVCALC 48
>2yho_A E3 ubiquitin-protein ligase mylip; ligase, E2 ligase-E3 ligase
complex, ring zinc-finger, UBL conjugation pathway;
2.10A {Homo sapiens} PDB: 2yhn_A
Length = 79
Score = 31.7 bits (72), Expect = 0.015
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 3/54 (5%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKC 61
+R L+ + +LC +C E + CGHT C C C CP C
Sbjct: 5 TRVLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVC--C-ESCAAQLQSCPVC 55
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 31.0 bits (69), Expect = 0.046
Identities = 13/44 (29%), Positives = 18/44 (40%), Gaps = 2/44 (4%)
Query: 24 CPICFELIREAH-ITRCGHTFCFSCISKCVELQIK-CPKCSASL 65
C C I+ + C H FC+ C + K CP CS +
Sbjct: 4 CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPV 47
>2kiz_A E3 ubiquitin-protein ligase arkadia; ring-H2 finger, E3 ligase,
Zn binding domain, metal zinc, zinc-finger, metal
binding protein; NMR {Homo sapiens}
Length = 69
Score = 30.0 bits (68), Expect = 0.053
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 3/58 (5%)
Query: 12 KRQHSPPDNDLLCPICFELIREAHITR---CGHTFCFSCISKCVELQIKCPKCSASLP 66
+ + D + C IC ++ E R C H F C+ + + KCP C +
Sbjct: 5 GEEGTEEDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE 62
>2ea5_A Cell growth regulator with ring finger domain protein 1; CGRRF1,
ring domain, zinc-binding domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 68
Score = 29.8 bits (67), Expect = 0.075
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKC 61
+N C +C + C HT C CV+ +CP C
Sbjct: 13 ENSKDCVVCQNGTVNWVLLPCRHTCL--C-DGCVKYFQQCPMC 52
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 31.2 bits (70), Expect = 0.10
Identities = 10/39 (25%), Positives = 16/39 (41%), Gaps = 6/39 (15%)
Query: 11 LKRQHSPPDNDLL--CPICFELIREAHITRCGHTFCFSC 47
L+ + PD D L PI LI + + H + +
Sbjct: 219 LENPSNTPDKDYLLSIPISCPLI---GVIQLAH-YVVTA 253
Score = 28.9 bits (64), Expect = 0.65
Identities = 27/134 (20%), Positives = 46/134 (34%), Gaps = 40/134 (29%)
Query: 28 FELIREA-----HI-TRCGHTFCFSCIS-----KCVELQIKCPKCSASLPDMNSVFPNFL 76
F +R+A I RC + + + +E P S P M S+ + L
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP----S-P-MLSI--SNL 344
Query: 77 LNELVQKHKIKSAQDSDGLRDFVASESQ-NLSLPDVN-----------LMLEVLNQRKHL 124
E VQ + + + + + Q +SL VN L LN
Sbjct: 345 TQEQVQDY-V------NKTNSHLPAGKQVEISL--VNGAKNLVVSGPPQSLYGLNLTLRK 395
Query: 125 LEAESSVAQYKLLY 138
+A S + Q ++ +
Sbjct: 396 AKAPSGLDQSRIPF 409
>2ko5_A Ring finger protein Z; lassa fever virus-Z, negative regulator of
EIF4E, cytoplasm, HOST-virus interaction, lipoprotein,
membrane; NMR {Lassa virus josiah}
Length = 99
Score = 29.8 bits (66), Expect = 0.11
Identities = 15/66 (22%), Positives = 26/66 (39%), Gaps = 5/66 (7%)
Query: 5 STPSRSLKRQHSPPDNDLL----CPICFELIREAHITRCGHTFCFSCISKCVELQIKCPK 60
+ S+ R PD L C C+ + + H C +C++ + + +CP
Sbjct: 8 APESKDSPRASLIPDATHLGPQFCKSCW-FENKGLVECNNHYLCLNCLTLLLSVSNRCPI 66
Query: 61 CSASLP 66
C LP
Sbjct: 67 CKMPLP 72
>4a0k_B E3 ubiquitin-protein ligase RBX1; ligase-DNA-binding protein-DNA
complex, DNA-binding protein- complex; HET: DNA 3DR;
5.93A {Mus musculus}
Length = 117
Score = 29.4 bits (65), Expect = 0.21
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 35 HITRCGHTFCFSCISKCVELQIKCPKC 61
C H F F CIS+ ++ + CP
Sbjct: 80 AWGVCNHAFHFHCISRWLKTRQVCPLD 106
>3dpl_R Ring-box protein 1; ubiquitin, NEDD8, cullin, HOST-virus
interaction, receptor, UBL conjugation, UBL conjugation
pathway, acetylation, cytoplasm; 2.60A {Homo sapiens}
SCOP: g.44.1.1 PDB: 3dqv_R 3rtr_B 1u6g_B 2hye_D* 4a0c_D
4a0l_F* 1ldj_B 1ldk_C 2lgv_A
Length = 106
Score = 29.0 bits (64), Expect = 0.22
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 35 HITRCGHTFCFSCISKCVELQIKCPKC 61
C H F F CIS+ ++ + CP
Sbjct: 69 AWGVCNHAFHFHCISRWLKTRQVCPLD 95
>4fo9_A E3 SUMO-protein ligase PIAS2; E3 ligase, pinit domain, SP-ring
domain, structural GE consortium, SGC; 2.39A {Homo
sapiens} PDB: 2asq_B
Length = 360
Score = 29.9 bits (66), Expect = 0.23
Identities = 10/51 (19%), Positives = 14/51 (27%), Gaps = 5/51 (9%)
Query: 21 DLLCPICFELIREAHITR-CGHTFCFSCISKCVELQ----IKCPKCSASLP 66
L+CP+ + C H CF + CP C
Sbjct: 215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQMNEKKPTWICPVCDKKAA 265
>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 75
Score = 28.4 bits (64), Expect = 0.24
Identities = 15/62 (24%), Positives = 22/62 (35%), Gaps = 4/62 (6%)
Query: 7 PSRSLKRQHSPPDNDLLCPICFELIREAHITR---CGHTFCFSCISKCVELQIKCPKCSA 63
PS + + LC +C + R C H F C+ K ++ CP C A
Sbjct: 10 PSYRFNPNNHQSE-QTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRA 68
Query: 64 SL 65
Sbjct: 69 DS 70
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 29.8 bits (66), Expect = 0.25
Identities = 12/66 (18%), Positives = 19/66 (28%), Gaps = 19/66 (28%)
Query: 19 DNDLLCPICFELIREA--------HITRCGHTFCFSCISK-----------CVELQIKCP 59
+ +L C ICF + +C C+ + +CP
Sbjct: 306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCP 365
Query: 60 KCSASL 65
C A L
Sbjct: 366 FCKAKL 371
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring
E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A
{Saccharomyces cerevisiae}
Length = 371
Score = 29.5 bits (65), Expect = 0.32
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 5/51 (9%)
Query: 21 DLLCPICFELIRE-AHITRCGHTFCFSCIS----KCVELQIKCPKCSASLP 66
L CPI + ++ + C H CF + + +CP C +
Sbjct: 249 SLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPTWQCPVCQIDIA 299
>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural
genomics, PSI-2, protein structure initiative; NMR
{Escherichia coli} SCOP: g.41.18.1
Length = 101
Score = 28.4 bits (63), Expect = 0.36
Identities = 14/45 (31%), Positives = 22/45 (48%), Gaps = 5/45 (11%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
+L CP C ++ + GH C SC + +E++ CP C L
Sbjct: 32 ELHCPQCQHVLDQ----DNGHARCRSC-GEFIEMKALCPDCHQPL 71
>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR
{Oryza sativa} SCOP: g.44.1.1
Length = 55
Score = 26.8 bits (60), Expect = 0.65
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 4/51 (7%)
Query: 19 DNDLLCPICFELIREAHITR----CGHTFCFSCISKCVELQIKCPKCSASL 65
D+ + C +C + + R CGH F C+ + CP C ++
Sbjct: 3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 0.87
Identities = 9/37 (24%), Positives = 16/37 (43%), Gaps = 9/37 (24%)
Query: 82 QKHKIKSAQDSDGLRDFVASESQNLSLP--DVNLMLE 116
+K +K Q S L+ + A +S P + +E
Sbjct: 18 EKQALKKLQAS--LKLY-ADDSA----PALAIKATME 47
>3t6p_A Baculoviral IAP repeat-containing protein 2; ring, BIR, CARD, UBA,
apoptosis, ubiquitin ligase, SMAC/ ubiquitin, caspase,
IAP family, SMAC mimetic; 1.90A {Homo sapiens} PDB:
1qbh_A 2l9m_A 3eb5_A 3eb6_A
Length = 345
Score = 28.4 bits (61), Expect = 0.95
Identities = 14/54 (25%), Positives = 18/54 (33%), Gaps = 5/54 (9%)
Query: 9 RSLKRQHSPPDNDLLCPICFELIREAHITRCGH-TFCFSCISKCVELQIKCPKC 61
SL+ Q + C +C + CGH C C KCP C
Sbjct: 283 LSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLR----KCPIC 332
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module,
phosphoinositide binding, caspase regulation, metal
binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1
g.50.1.1
Length = 120
Score = 26.3 bits (57), Expect = 2.5
Identities = 12/52 (23%), Positives = 15/52 (28%), Gaps = 4/52 (7%)
Query: 16 SPPDNDLLCPIC---FELIREAHITR-CGHTFCFSCISKCVELQIKCPKCSA 63
SP + C C F C FC +C S+ C C
Sbjct: 14 SPTGLEPSCKSCGAHFANTARKQTCLDCKKNFCMTCSSQVGNGPRLCLLCQR 65
>2qkd_A Zinc finger protein ZPR1; helical hairpins, beta helix,
anti-parrallel beta sheet, double straded anti-parallel
beta helix, metal binding protein; 2.00A {Mus musculus}
Length = 404
Score = 26.5 bits (58), Expect = 3.4
Identities = 15/118 (12%), Positives = 40/118 (33%), Gaps = 10/118 (8%)
Query: 23 LCPICFE-LIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLNELV 81
LC C+ +T+ + + C C + + + +
Sbjct: 14 LCMNCYRNGTTRLLLTKIPF------FREIIVSSFSCEHCGWNN---TEIQSAGRIQDQG 64
Query: 82 QKHKIKSAQDSDGLRDFVASESQNLSLPDVNLMLEVLNQRKHLLEAESSVAQYKLLYE 139
++ + D R+ V ++S +P+++ + +Q+ L E +++ E
Sbjct: 65 VRYTLTVRSQEDMNREVVKTDSATTRIPELDFEIPAFSQKGALTTVEGLISRAISGLE 122
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate;
VHS, FYVE, zinc finger, superhelix, transferase; HET:
CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2
g.50.1.1
Length = 220
Score = 26.3 bits (57), Expect = 3.9
Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 1/44 (2%)
Query: 12 KRQHSPPDNDLLCPICFELI-REAHITRCGHTFCFSCISKCVEL 54
+ C + F R+ H CG FC C +K L
Sbjct: 155 APNWADGRVCHRCRVEFTFTNRKHHCRNCGQVFCGQCTAKQCPL 198
>1wjv_A Cell growth regulating nucleolar protein LYAR; DNA-binding
protein, C2H2 type zinc-finger, structural genomics;
NMR {Mus musculus} SCOP: g.37.1.2 g.37.1.2
Length = 79
Score = 24.8 bits (54), Expect = 4.5
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 24 CPICFELIR----EAHITRCGHTFCFSCI 48
C C E ++ E H++ C + C SCI
Sbjct: 13 CNACGESVKKIQVEKHVSNCRNCECLSCI 41
>1nyp_A Pinch protein; LIM domain, protein recognition, cell adhesion;
NMR {Homo sapiens} SCOP: g.39.1.3 g.39.1.3 PDB: 1u5s_B
Length = 66
Score = 24.6 bits (54), Expect = 5.4
Identities = 9/32 (28%), Positives = 12/32 (37%), Gaps = 4/32 (12%)
Query: 23 LCPICFELIREAHITRCG---HTFCFSCISKC 51
+C C I + G H F C +KC
Sbjct: 7 ICGACRRPIEGRVVNAMGKQWHVEHFVC-AKC 37
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics,
structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB:
2yqm_A
Length = 82
Score = 24.7 bits (54), Expect = 6.6
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 5/42 (11%)
Query: 18 PDND-LLCPIC---FELIREAHITR-CGHTFCFSCISKCVEL 54
D++ C C F + R H R CGH FC +C S + L
Sbjct: 15 KDDEATHCRQCEKEFSISRRKHHCRNCGHIFCNTCSSNELAL 56
>2cor_A Pinch protein; LIM domain, particularly interesting NEW Cys- His
protein, LIM and senescent cell antigen-like domains 1,
structural genomics; NMR {Homo sapiens} SCOP: g.39.1.3
g.39.1.3
Length = 79
Score = 24.4 bits (53), Expect = 6.9
Identities = 8/32 (25%), Positives = 13/32 (40%), Gaps = 4/32 (12%)
Query: 23 LCPICFELIREAHITRCG---HTFCFSCISKC 51
+C C +I E + H F+C + C
Sbjct: 17 ICQKCHAIIDEQPLIFKNDPYHPDHFNC-ANC 47
>2ww4_A 4-diphosphocytidyl-2C-methyl-D-erythritol kinase; non-mevalonate
pathway, isoprenoid biosynthesis, transferase; HET: ADP;
2.00A {Escherichia coli} PDB: 1oj4_A*
Length = 283
Score = 25.3 bits (56), Expect = 7.2
Identities = 7/19 (36%), Positives = 10/19 (52%), Gaps = 3/19 (15%)
Query: 111 VNLMLEVLNQRK---HLLE 126
+NL L + QR H L+
Sbjct: 11 LNLFLYITGQRADGYHTLQ 29
>2dar_A PDZ and LIM domain protein 5; enigma homolog protein, structural
genomics, NPPSFA, national project on protein
structural and functional analyses; NMR {Homo sapiens}
SCOP: g.39.1.3 g.39.1.3
Length = 90
Score = 24.3 bits (53), Expect = 9.3
Identities = 8/32 (25%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 23 LCPICFELIREAHITRCGHTF---CFSCISKC 51
+C C ++IR + G ++ F+C + C
Sbjct: 27 MCAHCNQVIRGPFLVALGKSWHPEEFNC-AHC 57
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.133 0.397
Gapped
Lambda K H
0.267 0.0436 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,895,481
Number of extensions: 95315
Number of successful extensions: 385
Number of sequences better than 10.0: 1
Number of HSP's gapped: 337
Number of HSP's successfully gapped: 123
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.5 bits)