RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8622
(101 letters)
>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 = 89.8 bits (223), Expect = 1e-25
Identities = 28/66 (42%), Positives = 42/66 (63%)
Query: 35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL 94
S L+C VC E + L E+VR+LPC+H +H CI PWL+ H +CP+CR++L ++ +
Sbjct: 11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATN 70
Query: 95 GPAGAG 100
P G
Sbjct: 71 PPGLTG 76
>2l0b_A E3 ubiquitin-protein ligase praja-1; zinc finger, NESG,
structural genomics, PSI-2, protein struc initiative;
NMR {Homo sapiens}
Length = 91
Score = 85.5 bits (212), Expect = 1e-23
Identities = 18/51 (35%), Positives = 28/51 (54%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
+ C +C ++ + +LPC H++H PC+ WLQ GTCP+CR
Sbjct: 37 VGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMF 87
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 80.6 bits (199), Expect = 7e-22
Identities = 18/67 (26%), Positives = 33/67 (49%)
Query: 32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
+V+ + + C+VC E F + + PC H +H C+ WL++ CP+C + +
Sbjct: 8 KVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQ 67
Query: 92 ESLGPAG 98
S +G
Sbjct: 68 LSGPSSG 74
>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 = 78.9 bits (195), Expect = 2e-21
Identities = 19/58 (32%), Positives = 32/58 (55%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAES 93
+D+ +C++C E VR+LPC H +H C++ WL + CPICR + ++
Sbjct: 11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSE 68
>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 75
Score = 74.7 bits (184), Expect = 1e-19
Identities = 20/56 (35%), Positives = 28/56 (50%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
C VC F + +R LPC+H +H C++ WL+ + TCPICR S
Sbjct: 20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPSSG 75
>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR
{Oryza sativa} SCOP: g.44.1.1
Length = 55
Score = 68.0 bits (167), Expect = 4e-17
Identities = 21/51 (41%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 86
D ++C+VC + E R LP C H +H C++ WL H TCP+CR T+
Sbjct: 3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 67.8 bits (166), Expect = 5e-17
Identities = 19/67 (28%), Positives = 29/67 (43%), Gaps = 4/67 (5%)
Query: 32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESA 91
+V+ +C +C + A LPC H + CI+ W H CPICR + +
Sbjct: 8 RVKQLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANE 63
Query: 92 ESLGPAG 98
S +G
Sbjct: 64 SSGPSSG 70
>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 = 62.3 bits (152), Expect = 5e-15
Identities = 15/51 (29%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 37 DSNLQCSVCWEQ-FTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
+ C +C E T LPC H H C E L+ CP+C
Sbjct: 3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 60.1 bits (146), Expect = 7e-14
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
+C +C E + LPC H + CI W++ + TCP+C+ + S
Sbjct: 7 RCPICLEDPS--NYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVES 52
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 56.8 bits (137), Expect = 1e-12
Identities = 11/58 (18%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 36 DDSNLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
+ C +C + ++ + C H + + C+ L+ TCP CR+ ++ +
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 54.1 bits (130), Expect = 2e-11
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 42 CSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 86
C C + ++ V C+H +H C+ W++ + CP+C+Q
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDW 74
>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 = 53.7 bits (129), Expect = 2e-11
Identities = 11/59 (18%), Positives = 25/59 (42%), Gaps = 4/59 (6%)
Query: 36 DDSNLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
+ C +C + ++ + C H + + C+ L+ TCP CR+ ++ +
Sbjct: 7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 65
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 53.2 bits (128), Expect = 3e-11
Identities = 11/57 (19%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 38 SNLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
+ + C +C + ++ + C H + + C+ L+ TCP CR+ ++ +
Sbjct: 2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKR 58
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 50.1 bits (120), Expect = 5e-10
Identities = 12/62 (19%), Positives = 20/62 (32%), Gaps = 2/62 (3%)
Query: 27 NPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
+ + + + CS+C +A C H + CI CP C +
Sbjct: 3 SGSSGNLSELTPYILCSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKCNIVV 60
Query: 87 HS 88
H
Sbjct: 61 HQ 62
>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 = 48.3 bits (115), Expect = 4e-09
Identities = 17/74 (22%), Positives = 25/74 (33%), Gaps = 3/74 (4%)
Query: 18 LGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-H 76
+G H+ + V + +C +C E+ +A C CI WL
Sbjct: 1 MGHHHHHHSHMDEQSVESIAEVFRCFICMEKLR--DARLCPHCSKLCCFSCIRRWLTEQR 58
Query: 77 GTCPICRQTLHSES 90
CP CR L
Sbjct: 59 AQCPHCRAPLQLRE 72
>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 = 47.9 bits (114), Expect = 7e-09
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 31 VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
+++ + +L C +C F +A + C H + CI +L+ CPIC +H
Sbjct: 7 IKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 46.4 bits (110), Expect = 2e-08
Identities = 15/64 (23%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESL 94
+ +C++C + V LPC H + C++ L C +CRQ + + +S
Sbjct: 11 PSLTVPECAICLQTCV--HPVS-LPCKHVFCYLCVKGASWLGKRCALCRQEIPEDFLDSG 67
Query: 95 GPAG 98
+G
Sbjct: 68 PSSG 71
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 47.3 bits (112), Expect = 3e-08
Identities = 21/55 (38%), Positives = 32/55 (58%), Gaps = 3/55 (5%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSES 90
++ LQC +C E F EAV L C H + + CI W++ CPICR+ + S++
Sbjct: 61 LENELQCIICSEYFI--EAVT-LNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 46.3 bits (110), Expect = 3e-08
Identities = 20/63 (31%), Positives = 29/63 (46%), Gaps = 2/63 (3%)
Query: 28 PALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH 87
P L ++T D L+C +C+E F A+ C H Y + CI +L CP C T+
Sbjct: 11 PGLAVMKTIDDLLRCGICFEYFN--IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68
Query: 88 SES 90
Sbjct: 69 EPD 71
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 45.6 bits (108), Expect = 4e-08
Identities = 11/49 (22%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
++ +C +C + F V C H++ C + C IC Q
Sbjct: 12 EEIPFRCFICRQAFQ--NPVV-TKCRHYFCESCALEHFRATPRCYICDQ 57
>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 = 47.5 bits (112), Expect = 7e-08
Identities = 15/55 (27%), Positives = 21/55 (38%), Gaps = 4/55 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES 90
+ C +C E V+ PC H T C+ W + G CP CR +
Sbjct: 330 STFQLCKICAENDK---DVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIKGTE 381
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 46.0 bits (108), Expect = 2e-07
Identities = 18/75 (24%), Positives = 28/75 (37%), Gaps = 16/75 (21%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQ-----------LHGTC 79
D+ L+C++C+ V + CD H C+E W + G C
Sbjct: 305 DNEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQC 364
Query: 80 PICRQTLHSESAESL 94
P C+ L + A L
Sbjct: 365 PFCKAKLSTSFAALL 379
>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 = 43.7 bits (102), Expect = 3e-07
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 32 QVRTDDSNLQCSVCWEQFTLD-EAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
+ D ++C T + V C+H +H CI WL+ CP+ +
Sbjct: 44 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 42.8 bits (101), Expect = 6e-07
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 4/62 (6%)
Query: 37 DSNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHG---TCPICRQTLHSESAE 92
L+C +C E FT ++ K L C H C+E L CP C + S
Sbjct: 13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLT 72
Query: 93 SL 94
L
Sbjct: 73 QL 74
>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 = 43.3 bits (101), Expect = 7e-07
Identities = 10/44 (22%), Positives = 18/44 (40%)
Query: 41 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
+ + + V C+H +H CI WL+ CP+ +
Sbjct: 65 CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108
>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 = 41.5 bits (97), Expect = 1e-06
Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQ 84
D+ C++C + C H PC+ + Q + CP C
Sbjct: 12 PDAVKICNICHSLLI--QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCND 60
>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 = 40.0 bits (94), Expect = 3e-06
Identities = 9/52 (17%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 38 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
S++ C++ + V + +E +++ G PI + L E
Sbjct: 2 SHMLCAISGKVPR--RPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIE 51
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 41.6 bits (97), Expect = 6e-06
Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 4/63 (6%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQTLHSESAES 93
D+ C++C + C H PC+ + Q + CP C E +
Sbjct: 177 PDAVKICNICHSLLI--QGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPHEIPKV 234
Query: 94 LGP 96
P
Sbjct: 235 FDP 237
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 39.8 bits (92), Expect = 2e-05
Identities = 11/58 (18%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRK----LPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
+ C +C + ++ + C H + + C+ L+ TCP CR+ ++ +
Sbjct: 4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 61
Score = 34.0 bits (77), Expect = 0.003
Identities = 11/52 (21%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 39 NLQCSVCWEQFT----LDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 86
+ C +C + ++ + C H + + C+ L+ TCP CR+ +
Sbjct: 72 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>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 = 38.6 bits (90), Expect = 2e-05
Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQTLHS 88
L C +C + T +AV C + Y CI L TCP C Q S
Sbjct: 13 PDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 64
>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 = 39.1 bits (91), Expect = 2e-05
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSESAESLGP 96
QC +C E E V LPC+H PC + ++ CP CR+ + S +
Sbjct: 16 CQCGICMEILV--EPVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRYHTRR 70
>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 = 38.8 bits (90), Expect = 3e-05
Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 4/53 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHS 88
+ QC C E + C H C++ + +CP CR L
Sbjct: 50 EETFQCICCQELVF--RPIT-TVCQHNVCKDCLDRSFRAQVFSCPACRYDLGR 99
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 37.8 bits (88), Expect = 5e-05
Identities = 17/54 (31%), Positives = 21/54 (38%), Gaps = 4/54 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG--TCPICRQTLHS 88
L C +C + T +AV C + Y CI L TCP C Q S
Sbjct: 11 PDELLCLICKDIMT--DAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQNDVS 62
>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 = 37.6 bits (87), Expect = 8e-05
Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 4/74 (5%)
Query: 17 SLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH 76
+ +H +T+ A+ ++ C +C + L + V C H + CI L++
Sbjct: 1 NCSKIHLSTKLLAVDFPAHFVKSISCQIC--EHILADPVE-TSCKHLFCRICILRCLKVM 57
Query: 77 G-TCPICRQTLHSE 89
G CP CR
Sbjct: 58 GSYCPSCRYPCFPT 71
>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 = 37.5 bits (86), Expect = 9e-05
Identities = 11/76 (14%), Positives = 18/76 (23%), Gaps = 20/76 (26%)
Query: 30 LVQVRTDDSNLQCSVCWEQFTL---------------DEAVRKLPCDHFYHTPCIEPWLQ 74
+ C +C E+ + R C H +H C+
Sbjct: 16 YTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYC 75
Query: 75 -----LHGTCPICRQT 85
CP C+
Sbjct: 76 NGNKDGSLQCPSCKTI 91
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 36.2 bits (84), Expect = 1e-04
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 84
L+C C + + LPC H + C+E CPIC+
Sbjct: 7 LRCQQCQAEAK---CPKLLPCLHTLCSGCLE---ASGMQCPICQA 45
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 36.6 bits (84), Expect = 1e-04
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 2/59 (3%)
Query: 36 DDSNLQCSVCWEQFTL-DEAVRKLPCDHFYHTPCIEPWL-QLHGTCPICRQTLHSESAE 92
+ ++C +C E + D C + C +G CP CR+ + A
Sbjct: 8 KEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKPYPEDPAV 66
>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 = 37.2 bits (86), Expect = 1e-04
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 4/49 (8%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT 85
+ L+CS C E V C+H + + C+ + CP+C
Sbjct: 20 EKLLRCSRCTNILR--EPVCLGGCEHIFCSNCVSDCIG--TGCPVCYTP 64
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 35.9 bits (83), Expect = 2e-04
Identities = 11/59 (18%), Positives = 22/59 (37%), Gaps = 4/59 (6%)
Query: 33 VRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES 90
V+T + +C C L + C H + C+ L C C++++ +
Sbjct: 9 VKTVEDKYKCEKCHL--VLCSPKQ-TECGHRFCESCMAALLSSSSPKCTACQESIVKDK 64
>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 = 38.0 bits (87), Expect = 2e-04
Identities = 13/64 (20%), Positives = 25/64 (39%), Gaps = 6/64 (9%)
Query: 31 VQVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT--CPI--CRQTL 86
+Q+ L C + + + + C+H + I+ +LQ + T CP C Q +
Sbjct: 173 LQIEGGKIELTCPITCKPYE--APLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVV 230
Query: 87 HSES 90
Sbjct: 231 SMRD 234
>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 = 36.3 bits (84), Expect = 3e-04
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 4/55 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSES 90
+S +C +C L EAV+ PC H + CI ++ G CP+ + L
Sbjct: 16 ESKYECPIC--LMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQ 67
>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 = 36.5 bits (84), Expect = 3e-04
Identities = 12/50 (24%), Positives = 17/50 (34%), Gaps = 4/50 (8%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHS 88
C C E + V C H C++ + +CP CR L
Sbjct: 79 FMCVCCQELVY--QPV-TTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQ 125
>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 = 36.1 bits (83), Expect = 6e-04
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSE 89
L C +C + + C H + CI L+ CP CR+ L S+
Sbjct: 55 LMCPICLDMLK--NTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSK 103
>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 = 34.7 bits (79), Expect = 0.002
Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 4/54 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSE 89
+S +C +C L EAV+ PC H + CI ++ G CP+ + L
Sbjct: 16 ESKYECPIC--LMALREAVQ-TPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN 66
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 32.7 bits (75), Expect = 0.003
Identities = 10/54 (18%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT---CPICRQTLHSES 90
+ C +C + + V + C H + CI + CP+C+ ++ +
Sbjct: 21 VICPICLDILQ--KPVT-IDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNA 71
>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 = 32.9 bits (75), Expect = 0.003
Identities = 6/35 (17%), Positives = 18/35 (51%)
Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLH 76
C +C ++ +++ C + T C++ +++L
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELL 42
>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 = 32.8 bits (75), Expect = 0.005
Identities = 10/32 (31%), Positives = 10/32 (31%)
Query: 58 LPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
LP I L T P RQTL
Sbjct: 45 LPSGTIMDRSIILRHLLNSPTDPFNRQTLTES 76
>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 = 32.8 bits (75), Expect = 0.005
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG---TCPICRQTLHSES 90
L+C +C E E V CDH + C+ L CP+C+ + S
Sbjct: 22 LECPICLELIK--EPV-STKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRS 72
>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase,
UBL conjugation pathway; NMR {Mus musculus}
Length = 85
Score = 32.3 bits (74), Expect = 0.005
Identities = 9/32 (28%), Positives = 9/32 (28%)
Query: 58 LPCDHFYHTPCIEPWLQLHGTCPICRQTLHSE 89
LP I L T P RQ L
Sbjct: 30 LPSGTVMDRSIILRHLLNSPTDPFNRQMLTES 61
>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 = 32.0 bits (72), Expect = 0.013
Identities = 12/54 (22%), Positives = 18/54 (33%), Gaps = 4/54 (7%)
Query: 37 DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTLHSE 89
++ CS C + L + C H Y + C+ L C C E
Sbjct: 29 EAKYLCSAC--RNVLRRPFQ-AQCGHRYCSFCLASILSSGPQNCAACVHEGIYE 79
>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 = 32.4 bits (73), Expect = 0.014
Identities = 9/33 (27%), Positives = 10/33 (30%), Gaps = 1/33 (3%)
Query: 58 LPCDHF-YHTPCIEPWLQLHGTCPICRQTLHSE 89
LP I+ L T P R L E
Sbjct: 907 LPASKMNIDRSTIKAHLLSDSTDPFNRMPLKLE 939
>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 = 30.6 bits (69), Expect = 0.016
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 2/51 (3%)
Query: 35 TDDSNLQCSVCWEQFTLDEAVRKLPCDHFYH-TPCIEPWLQLHGTCPICRQ 84
+ CS+C ++ D + H C + +CPIC++
Sbjct: 3 CQNLLKPCSLCEKRPR-DGNIIHGRTGHLVTCFHCARRLKKAGASCPICKK 52
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 30.4 bits (69), Expect = 0.024
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 9/57 (15%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT------CPICRQTLHSES 90
+ C +C E E V C+H + CI + + CP+CR +
Sbjct: 20 VTCPICLELLK--EPVS-ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGN 73
>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 = 29.9 bits (67), Expect = 0.032
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 3/51 (5%)
Query: 39 NLQCSVCWEQFTLDEAVRKL--PCDHFYHTPCIEPWLQLH-GTCPICRQTL 86
+ C C + +++ + C H C++ G CP C L
Sbjct: 3 DQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPL 53
>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 = 29.5 bits (67), Expect = 0.046
Identities = 14/53 (26%), Positives = 20/53 (37%), Gaps = 10/53 (18%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT-------CPICRQT 85
+ C +C E T E + L C H CI + T CP+C +
Sbjct: 13 VTCPICLELLT--EPLS-LDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGIS 62
>2d8s_A Cellular modulator of immune recognition; C-MIR, march8, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 80
Score = 29.5 bits (66), Expect = 0.065
Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 8/62 (12%)
Query: 35 TDDSNLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQLHG--TCPICRQTLH 87
T S C +C + + + PC HF H C++ W++ C +C+
Sbjct: 11 TPSSQDICRICHCEGDDESPL-ITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCKYEFI 69
Query: 88 SE 89
E
Sbjct: 70 ME 71
>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 = 28.6 bits (64), Expect = 0.078
Identities = 9/52 (17%), Positives = 19/52 (36%), Gaps = 2/52 (3%)
Query: 34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYH-TPCIEPWLQLHGTCPICRQ 84
++ C +C + + + H C + + + CP+CRQ
Sbjct: 3 LPLNAIEPCVICQGRPK-NGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQ 53
>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 = 29.4 bits (66), Expect = 0.085
Identities = 8/33 (24%), Positives = 9/33 (27%), Gaps = 1/33 (3%)
Query: 58 LPCDHF-YHTPCIEPWLQLHGTCPICRQTLHSE 89
LP I L T P R L +
Sbjct: 38 LPSSRVTVDRSTIARHLLSDQTDPFNRSPLTMD 70
>3fwk_A FMN adenylyltransferase; FAD biosynthesis, alpha/beta protein,
rossmann- like fold, APO-form, extended loop region;
HET: BGC; 1.20A {Candida glabrata} PDB: 3g59_A* 3g5a_A*
3g6k_A*
Length = 308
Score = 29.9 bits (66), Expect = 0.093
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 3/46 (6%)
Query: 15 YSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWEQFTLDEAVRKLPC 60
++SLG+V T NP L R D ++ + +E +
Sbjct: 224 FTSLGNVEETLPNPHL---RKDKNSTPLKLNFEWEIENRYKHNEVT 266
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 28.0 bits (63), Expect = 0.22
Identities = 12/52 (23%), Positives = 22/52 (42%), Gaps = 9/52 (17%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWL------QLHGTCPICRQT 85
+ C +C E T + + L C H + C+ + +CP+CR +
Sbjct: 20 VTCPICLELLT--QPLS-LDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS 68
>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 = 27.5 bits (62), Expect = 0.30
Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 68 CIEPWLQL-HGTCPICRQTLHS 88
I+ WL H TCP ++TL
Sbjct: 34 SIQKWLDAGHKTCPKSQETLLH 55
>2wsi_A FAD synthetase; transferase, nucleotidyltransferase,
nucleotide-binding; HET: FAD; 1.90A {Saccharomyces
cerevisiae}
Length = 306
Score = 28.7 bits (63), Expect = 0.30
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 3/33 (9%)
Query: 15 YSSLGSVHNTTRNPALVQVRTDDSNLQCSVCWE 47
++S+G ++N+ NP L R D +N WE
Sbjct: 221 FTSIGGINNSLPNPHL---RKDSNNPALHFEWE 250
>1vyx_A ORF K3, K3RING; zinc-binding protein, ring domain, cross-brace
motif; NMR {Human herpesvirus 8} SCOP: g.44.1.3
Length = 60
Score = 27.0 bits (60), Expect = 0.35
Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 10/57 (17%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCD-----HFYHTPCIEPWLQLHG--TCPICRQT 85
D+ C +C E+ R C H C+ WL + C IC
Sbjct: 3 DEDVPVCWICNEE---LGNERFRACGCTGELENVHRSCLSTWLTISRNTACQICGVV 56
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 26.2 bits (58), Expect = 0.73
Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 6/46 (13%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT---CPIC 82
+ C +C + + V + C H + CI + CP+C
Sbjct: 21 VICPICLDILQ--KPVT-IDCGHNFCLKCITQIGETSCGFFKCPLC 63
>2qdd_A Mandelate racemase/muconate lactonizing enzyme; enolase,
structural genomics, PSI, protein structu initiative,
nysgrc; 2.30A {Roseovarius nubinhibens} PDB: 3fvd_B
Length = 378
Score = 27.3 bits (61), Expect = 0.94
Identities = 4/23 (17%), Positives = 11/23 (47%)
Query: 15 YSSLGSVHNTTRNPALVQVRTDD 37
+ S G + + +++ TD+
Sbjct: 22 WLSGGRLKFDRLDSTYLRIDTDE 44
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 25.7 bits (57), Expect = 0.97
Identities = 15/46 (32%), Positives = 19/46 (41%), Gaps = 6/46 (13%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT---CPIC 82
CSVC E E V + C H + CI W + CP+C
Sbjct: 16 ASCSVCLEYLK--EPVI-IECGHNFCKACITRWWEDLERDFPCPVC 58
>3eez_A Putative mandelate racemase/muconate lactonizing enzyme;
structural genomics, unknown function, PSI-2, protein
structure initiative; 2.80A {Silicibacter pomeroyi}
Length = 378
Score = 26.9 bits (60), Expect = 1.0
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 15 YSSLGSVHNTTRNPALVQVRTDD 37
+ S G + + LV++ TD
Sbjct: 22 WLSGGRLKFELLDATLVKLETDA 44
>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 = 26.3 bits (57), Expect = 1.1
Identities = 15/58 (25%), Positives = 22/58 (37%), Gaps = 4/58 (6%)
Query: 40 LQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPA 97
C CW F V +H+ C+ L + CPIC+ L ++ S P
Sbjct: 29 QFCKSCW--FENKGLVE--CNNHYLCLNCLTLLLSVSNRCPICKMPLPTKLRPSAAPT 82
>1gax_A Valrs, valyl-tRNA synthetase; protein-RNA complex, rossmann fold,
coiled coil, riken structural genomics/proteomics
initiative, RSGI; HET: VAA; 2.90A {Thermus thermophilus}
SCOP: a.2.7.3 a.27.1.1 b.51.1.1 c.26.1.1 PDB: 1ivs_A*
1iyw_A
Length = 862
Score = 27.1 bits (61), Expect = 1.1
Identities = 11/24 (45%), Positives = 12/24 (50%), Gaps = 6/24 (25%)
Query: 40 LQCSVCW--EQFTLDE----AVRK 57
L S W E FT+DE AVR
Sbjct: 132 LGASADWSREAFTMDEKRSRAVRY 155
>2k2q_B Surfactin synthetase thioesterase subunit; A/B-hydrolase, NRPS,
non-ribosomal peptide synthetase, type II thioesterase,
antibiotic biosynthesis; NMR {Bacillus subtilis} PDB:
2ron_A
Length = 242
Score = 26.7 bits (59), Expect = 1.3
Identities = 4/30 (13%), Positives = 10/30 (33%)
Query: 46 WEQFTLDEAVRKLPCDHFYHTPCIEPWLQL 75
W+++ D + H + E +
Sbjct: 200 WKKWAKDITFHQFDGGHMFLLSQTEEVAER 229
>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 = 25.9 bits (57), Expect = 1.4
Identities = 15/54 (27%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT 85
++R + C VC E+ + PC H C QL +CP+CR
Sbjct: 11 KLRKLKEAMLCMVCCEE---EINSTFCPCGHT--VCCESCAAQLQ-SCPVCRSR 58
>2ysm_A Myeloid/lymphoid or mixed-lineage leukemia protein 3 homolog; PHD
domain, histone-lysine N-methyltransferase, H3 lysine-4
specific MLL3; NMR {Homo sapiens}
Length = 111
Score = 25.7 bits (56), Expect = 1.9
Identities = 9/39 (23%), Positives = 14/39 (35%)
Query: 36 DDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ 74
S C+VC L + C YH C++ +
Sbjct: 4 GSSGANCAVCDSPGDLLDQFFCTTCGQHYHGMCLDIAVT 42
>1p5v_A CAF1M chaperone, chaperone protein CAF1M, CAF1M; chaperone-target
complex, chaperone-subunit complex, protein fiber;
1.70A {Yersinia pestis} SCOP: b.1.11.1 b.7.2.1 PDB:
1p5u_A 1z9s_A 2os7_A 3dos_A 3dpb_A 3dsn_A
Length = 235
Score = 26.0 bits (56), Expect = 2.5
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 20 SVHNTTRNPALVQVRTDDSN 39
SV NT P L+Q R D N
Sbjct: 33 SVKNTQDYPVLIQSRIYDEN 52
>3fla_A RIFR; alpha-beta hydrolase thioesterase, hydrolase; HET: MSE; 1.80A
{Amycolatopsis mediterranei} PDB: 3flb_A*
Length = 267
Score = 26.0 bits (57), Expect = 2.5
Identities = 11/57 (19%), Positives = 18/57 (31%), Gaps = 7/57 (12%)
Query: 46 WEQFTLDE-AVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHSESAESLGPAGAGE 101
WE+ T +R LP HF+ P + + L + + E
Sbjct: 211 WEEHTTGPADLRVLPGGHFFLVDQAAPMIA------TMTEKLAGPALTGSTGGNSLE 261
>3ask_A E3 ubiquitin-protein ligase UHRF1; histone reader modules,
epigenetic regulation, trimethylaion of lysine residue,
ligase-DNA binding protein; HET: M3L; 2.90A {Homo
sapiens}
Length = 226
Score = 25.9 bits (56), Expect = 2.5
Identities = 10/30 (33%), Positives = 13/30 (43%), Gaps = 5/30 (16%)
Query: 60 CDHFYHTPCIEPWLQ---LHGT--CPICRQ 84
CD +H C++P L CP CR
Sbjct: 195 CDMAFHIYCLDPPLSSVPSEDEWYCPECRN 224
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 24.3 bits (53), Expect = 3.7
Identities = 12/54 (22%), Positives = 22/54 (40%), Gaps = 6/54 (11%)
Query: 32 QVRTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQT 85
Q+R C +C ++ + A+ +PC H C + + CP+C
Sbjct: 18 QLRRLQEEKLCKICMDR---NIAIVFVPCGHL--VTCKQCAEAVD-KCPMCYTV 65
>3a43_A HYPD, hydrogenase nickel incorporation protein HYPA; [NIFE]
hydrogenase maturation, zinc-finger, nickel binding,
metal-binding; HET: FME; 2.30A {Pyrococcus
kodakaraensis} PDB: 3a44_A*
Length = 139
Score = 25.0 bits (54), Expect = 3.9
Identities = 9/41 (21%), Positives = 12/41 (29%)
Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC 82
C C ++ L E K I + CP C
Sbjct: 73 CRNCNYEWKLKEVKDKFDERIKEDIHFIPEVVHAFLACPKC 113
>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 = 24.0 bits (52), Expect = 4.9
Identities = 13/55 (23%), Positives = 20/55 (36%), Gaps = 6/55 (10%)
Query: 34 RTDDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLHS 88
+++++ C VC LPC H C CP+CRQ +
Sbjct: 10 PSEENSKDCVVCQNG---TVNWVLLPCRHT--CLCDGCVKYFQ-QCPMCRQFVQE 58
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 24.4 bits (52), Expect = 5.7
Identities = 10/47 (21%), Positives = 15/47 (31%), Gaps = 3/47 (6%)
Query: 42 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL-HGTCPICRQTLH 87
C C + R +PC H + C + CP C +
Sbjct: 4 CDKC--GLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQ 48
>2w57_A Ferric uptake regulation protein; gene regulation, transcription
regulation, transport, iron, repressor, DNA-binding,
transcription; 2.60A {Vibrio cholerae}
Length = 150
Score = 24.2 bits (53), Expect = 9.1
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 73 LQLHGTCPICRQTLHSESAE 92
L L+G C + +A
Sbjct: 127 LYLYGKCGSDGSCKDNPNAH 146
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
0.322 0.134 0.449
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: 1,476,921
Number of extensions: 69945
Number of successful extensions: 415
Number of sequences better than 10.0: 1
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 128
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
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: 51 (24.2 bits)