RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17006
(446 letters)
>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A
{Homo sapiens} PDB: 2an6_A 1k2f_A
Length = 193
Score = 213 bits (542), Expect = 2e-67
Identities = 151/192 (78%), Positives = 167/192 (86%), Gaps = 1/192 (0%)
Query: 256 VAETVTFPCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCPCPGASCKWSGALDQVMGHLN 315
VA +V FPC+Y +GC + L HTEK +HE+ CE+RPY CPCPGASCKW G+LD VM HL
Sbjct: 1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60
Query: 316 QSHKTITTLQGEDIVFLATDINLAGAVDWVMMQSCFGHHFMLVLEKQEI-DGRQHFFAIV 374
HK+ITTLQGEDIVFLATDINL GAVDWVMMQSCFG HFMLVLEKQE DG Q FFAIV
Sbjct: 61 HQHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIV 120
Query: 375 QLIGSRKQAEHFTYRLELNGHRRRLTWEATPRSIHEGIASAIMNSDCLVFDSNIAQLFAD 434
QLIG+RKQAE+F YRLELNGHRRRLTWEATPRSIHEGIA+AIMNSDCLVFD++IAQLFA+
Sbjct: 121 QLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQLFAE 180
Query: 435 NKNLGINVTIAT 446
N NLGINVTI+
Sbjct: 181 NGNLGINVTISM 192
Score = 145 bits (367), Expect = 9e-42
Identities = 104/156 (66%), Positives = 120/156 (76%), Gaps = 5/156 (3%)
Query: 88 VAETVTFPCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCPCPGASCKWSGALDQVMGHLN 147
VA +V FPC+Y +GC + L HTEK +HE+ CE+RPY CPCPGASCKW G+LD VM HL
Sbjct: 1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60
Query: 148 QSHKTITTLQGEDIVFLATDINLAGAVDWVMMQSCFGHHFMLVLEKQEI-DGRQHFFAIV 206
HK+ITTLQGEDIVFLATDINL GAVDWVMMQSCFG HFMLVLEKQE DG Q FFAIV
Sbjct: 61 HQHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIV 120
Query: 207 QLIGSRKQAEHFTYCQSGHLVCSNCRPKLSCCSTCR 242
QLIG+RKQAE+F Y + + R +L+ +T R
Sbjct: 121 QLIGTRKQAENFAYRLE---LNGHRR-RLTWEATPR 152
>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 = 63.1 bits (153), Expect = 1e-10
Identities = 86/495 (17%), Positives = 124/495 (25%), Gaps = 203/495 (41%)
Query: 28 GTSTD----LASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKLSCCSTCRGPLGNIRNL 83
G + D L L++ Y ++ + LS L
Sbjct: 164 GNTDDYFEELRDLYQ-----TY--HVLVG-----DLIKFSAETLS-------------EL 198
Query: 84 AMEKVAETVTFPCRYQMNGCNVV-LLHTEKPEHEDACEYRPY--HCP--CPG-------- 130
+ F G N++ L + Y P CP
Sbjct: 199 IRTTLDAEKVFT-----QGLNILEWLENPSNTPDK-----DYLLSIPISCPLIGVIQLAH 248
Query: 131 --ASCKWSGALDQVMGHLNQSHKTITTLQGEDIVFLATDINLAGAVDWVMMQSCFGHHFM 188
+ K L G L K T + +V A I A W +S F
Sbjct: 249 YVVTAK---LLGFTPGELRSYLKGATG-HSQGLV-TAVAI--AETDSW---ES-FFVSVR 297
Query: 189 LVLEKQEIDGRQHFFAIVQLIGSRKQAEHFTYCQSGHLVCSNCRPKLSCCSTCRG----- 243
+ FF IG R C + S P + S
Sbjct: 298 KAIT-------VLFF-----IGVR--------CYEAYPNTS-LPPSILEDSLENNEGVPS 336
Query: 244 PLGNIRNLAMEKVAETVT-----FPCRYQM-----NGC-NVVL-------------LHTE 279
P+ +I NL E+V + V P Q+ NG N+V+ L
Sbjct: 337 PMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKA 396
Query: 280 K-PEHED-----------ACEYR------PYHCPCPGASCKWSGALDQVMGHLNQSHKTI 321
K P D R P+H L + I
Sbjct: 397 KAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSH-----------------LLVPASDLI 439
Query: 322 TT-LQGEDIVFLATDINLAGAV----DWVMMQSCFGHHFMLVLEKQEIDGRQHFFAIVQL 376
L ++ F A D + V D ++ I R IV
Sbjct: 440 NKDLVKNNVSFNAKD--IQIPVYDTFDGSDLRV----------LSGSISER-----IVDC 482
Query: 377 IGSRKQAEHFTYRLELNGHRRRLTWEATPRSIHEGIASAIMNSDCLVFD----SNIAQLF 432
I R + WE T + A+ I L F S + L
Sbjct: 483 I-----------------IRLPVKWETTTQF----KATHI-----LDFGPGGASGLGVLT 516
Query: 433 ADNKN-LGINVTIAT 446
NK+ G+ V +A
Sbjct: 517 HRNKDGTGVRVIVAG 531
Score = 40.8 bits (95), Expect = 0.001
Identities = 48/259 (18%), Positives = 68/259 (26%), Gaps = 113/259 (43%)
Query: 13 VGSRRHEPTHPSMCPGTSTDLASLFECPVCFDYVLPPIIQCQS---GHLVCSNCRPKLSC 69
+G R +E +P+ LPP I S V S P LS
Sbjct: 306 IGVRCYE-AYPNTS--------------------LPPSILEDSLENNEGVPS---PMLS- 340
Query: 70 CSTCRGPLGNIRNLAMEKVAETVT-----FPCRYQM-----NGC-NVVL----------- 107
I NL E+V + V P Q+ NG N+V+
Sbjct: 341 ----------ISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLN 390
Query: 108 --LHTEK-PEHED-----------ACEYR------PYHCPCPGASCKWSGALDQVMGHLN 147
L K P D R P+H A D + L
Sbjct: 391 LTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHL------LVPASDLINKDLV 444
Query: 148 QSHKTIT----------TLQGEDIVFLATDI--NLAGA-----VDWVMMQSCFGHHFML- 189
+++ + T G D+ L+ I + V W H +
Sbjct: 445 KNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF 504
Query: 190 ---------VLEKQEIDGR 199
VL + DG
Sbjct: 505 GPGGASGLGVLTHRNKDGT 523
>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 = 46.3 bits (110), Expect = 1e-06
Identities = 20/104 (19%), Positives = 34/104 (32%), Gaps = 11/104 (10%)
Query: 32 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCSTCRGPLGN---IRNL 83
L S +ECP+C + + Q GH C C R C L +
Sbjct: 14 PLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDN 72
Query: 84 AMEKVAETVTFPCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCP 127
++ ++ C + GC + +H+ CE+
Sbjct: 73 FAKREILSLMVKCPNE--GCLHKMELRHLEDHQAHCEFALLEHH 114
Score = 36.3 bits (84), Expect = 0.004
Identities = 13/83 (15%), Positives = 23/83 (27%), Gaps = 10/83 (12%)
Query: 221 CQSGHLVCSNC-----RPKLSCCSTCRGPLGN---IRNLAMEKVAETVTFPCRYQMNGCN 272
GH C C R C L + ++ ++ C + GC
Sbjct: 34 TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPNE--GCL 91
Query: 273 VVLLHTEKPEHEDACEYRPYHCP 295
+ +H+ CE+
Sbjct: 92 HKMELRHLEDHQAHCEFALLEHH 114
>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 = 42.4 bits (99), Expect = 5e-05
Identities = 21/114 (18%), Positives = 34/114 (29%), Gaps = 17/114 (14%)
Query: 30 STDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCSTCRGPLGNIRNLA 84
T L + + C C + + P Q Q GH CS C C+ C ++
Sbjct: 25 GTKLEAKYLCSACRNVLRRPF-QAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGIS 83
Query: 85 MEKVAETV----------TFPCRYQMNGCN-VVLLHTEKPEHEDACEYRPYHCP 127
+ + + + P +GC L + HE C
Sbjct: 84 ILESSSAFPDNAARREVESLPAVCPSDGCTWKGTLKEYESCHEGRCPLMLLEHH 137
Score = 30.1 bits (67), Expect = 0.67
Identities = 15/91 (16%), Positives = 24/91 (26%), Gaps = 16/91 (17%)
Query: 221 CQSGHLVCSNC-----RPKLSCCSTCRGPLGNIRNLAMEKVAETV----------TFPCR 265
Q GH CS C C+ C +++ + + + P
Sbjct: 47 AQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSAFPDNAARREVESLPAV 106
Query: 266 YQMNGCN-VVLLHTEKPEHEDACEYRPYHCP 295
+GC L + HE C
Sbjct: 107 CPSDGCTWKGTLKEYESCHEGRCPLMLLEHH 137
>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 = 42.0 bits (98), Expect = 1e-04
Identities = 23/123 (18%), Positives = 39/123 (31%), Gaps = 11/123 (8%)
Query: 32 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCSTCRGPLGNIRNLAME 86
L S +ECP+C + + Q GH C C R C L +
Sbjct: 14 PLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDN 72
Query: 87 KVAETV-TFPCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCPCPGASCKWSGALDQVMGH 145
+ + + GC + +H+ CE+ CP C+ + H
Sbjct: 73 FAKREILSLMVKCPNEGCLHKMELRHLEDHQAHCEFALMDCP----QCQRPFQKFHINIH 128
Query: 146 LNQ 148
+ +
Sbjct: 129 ILK 131
Score = 31.6 bits (71), Expect = 0.28
Identities = 16/102 (15%), Positives = 28/102 (27%), Gaps = 10/102 (9%)
Query: 221 CQSGHLVCSNC-----RPKLSCCSTCRGPLGNIRNLAMEKVAETV-TFPCRYQMNGCNVV 274
GH C C R C L + + + + GC
Sbjct: 34 TPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKREILSLMVKCPNEGCLHK 93
Query: 275 LLHTEKPEHEDACEYRPYHCPCPGASCKWSGALDQVMGHLNQ 316
+ +H+ CE+ CP C+ + H+ +
Sbjct: 94 MELRHLEDHQAHCEFALMDCP----QCQRPFQKFHINIHILK 131
>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 = 38.7 bits (90), Expect = 3e-04
Identities = 17/84 (20%), Positives = 31/84 (36%), Gaps = 8/84 (9%)
Query: 17 RHEPTHPSMCPGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCS 71
H H M + +A +F C +C + + + L C +C + + C
Sbjct: 3 HHHHHHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCP 62
Query: 72 TCRGPLGN---IRNLAMEKVAETV 92
CR PL + E+V + +
Sbjct: 63 HCRAPLQLRELVNCRWAEEVTQQL 86
>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 = 36.0 bits (83), Expect = 0.005
Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 8/82 (9%)
Query: 19 EPTHPSMCPGTSTDLASLFE---CPVCFDYVLPPIIQCQSGHLVCSNCRPKL--SCCSTC 73
EP + L L + C C + + P+ H+ CSNC + C C
Sbjct: 2 EPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPVC 61
Query: 74 RGP--LGNIR-NLAMEKVAETV 92
P + +++ N ++ + +
Sbjct: 62 YTPAWIQDLKINRQLDSMIQLC 83
>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 = 35.4 bits (81), Expect = 0.014
Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 13/83 (15%)
Query: 27 PGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCSTCRGPLGN- 79
P L F C C + V P+ +C H VC +C + ++ C CR LG
Sbjct: 69 PNFLKKLEQSFMCVCCQELVYQPVTTEC--FHNVCKDCLQRSFKAQVFSCPACRHDLGQN 126
Query: 80 ---IRNLAMEKVAETVTFPCRYQ 99
I N ++ + + FP +
Sbjct: 127 YIMIPNEILQTLLDLF-FPGYSK 148
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 32.8 bits (75), Expect = 0.024
Identities = 9/55 (16%), Positives = 18/55 (32%), Gaps = 4/55 (7%)
Query: 31 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-RPKLS---CCSTCRGPLGNIR 81
++L C +C Y++ + H C +C C C + +
Sbjct: 10 SELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVHQTQ 64
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 32.5 bits (74), Expect = 0.032
Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 8/47 (17%)
Query: 37 FECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCSTCRGPL 77
++C C + P +C GH C +C C+ C+ +
Sbjct: 16 YKCEKCHLVLCSPKQTEC--GHRFCESCMAALLSSSSPKCTACQESI 60
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 32.5 bits (74), Expect = 0.033
Identities = 18/64 (28%), Positives = 24/64 (37%), Gaps = 7/64 (10%)
Query: 28 GTSTDLASLFECPVCFDYVLPPII-QCQSGHLVCSNC----RPKLSCCSTCRGPLGNIRN 82
G S + F C +C P++ +C H C +C C C P G I N
Sbjct: 7 GGSEEEEIPFRCFICRQAFQNPVVTKC--RHYFCESCALEHFRATPRCYICDQPTGGIFN 64
Query: 83 LAME 86
A E
Sbjct: 65 PAKE 68
>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 = 34.2 bits (78), Expect = 0.034
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 9/59 (15%)
Query: 32 DLASLFECPVCFDYVLPP--IIQCQSGHLVCSNC-----RPKLSCCSTCRGPLGNIRNL 83
L S CP+C D + +C H C++C R C TCR L + R+L
Sbjct: 50 SLHSELMCPICLDMLKNTMTTKEC--LHRFCADCIITALRSGNKECPTCRKKLVSKRSL 106
>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 = 0.041
Identities = 9/44 (20%), Positives = 16/44 (36%)
Query: 20 PTHPSMCPGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC 63
+ +L + CP C Y + + G +VC+ C
Sbjct: 5 ESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALC 48
>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 = 31.8 bits (72), Expect = 0.11
Identities = 13/61 (21%), Positives = 24/61 (39%), Gaps = 8/61 (13%)
Query: 25 MCPGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCSTCRGPLG 78
P + S +C +C + ++ P+ + C H +C C CC CR +
Sbjct: 4 ALPKDAIPSLSECQCGICMEILVEPVTLPC--NHTLCKPCFQSTVEKASLCCPFCRRRVS 61
Query: 79 N 79
+
Sbjct: 62 S 62
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 31.3 bits (71), Expect = 0.13
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 11/68 (16%)
Query: 32 DLASLFECPVCFDYVLPP--IIQCQSGHLVCSNC----RPKLSCCSTCRGPL--GNIR-N 82
+ L C +CF+Y I QC H CS C + C TC + +++ N
Sbjct: 18 TIDDLLRCGICFEYFNIAMIIPQC--SHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNN 75
Query: 83 LAMEKVAE 90
++++ +
Sbjct: 76 RILDELVK 83
>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 = 31.9 bits (72), Expect = 0.13
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 8/70 (11%)
Query: 20 PTHPSMCPGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCSTC 73
P S + + F+C C + V PI C H VC +C R ++ C C
Sbjct: 36 PASGSPFQLFLSKVEETFQCICCQELVFRPITTVC--QHNVCKDCLDRSFRAQVFSCPAC 93
Query: 74 RGPLGNIRNL 83
R LG +
Sbjct: 94 RYDLGRSYAM 103
>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 = 31.3 bits (71), Expect = 0.15
Identities = 11/55 (20%), Positives = 16/55 (29%), Gaps = 4/55 (7%)
Query: 31 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC----RPKLSCCSTCRGPLGNIR 81
T+L C +C Y + + H C C C C + R
Sbjct: 10 TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 30.8 bits (70), Expect = 0.17
Identities = 17/63 (26%), Positives = 24/63 (38%), Gaps = 14/63 (22%)
Query: 24 SMCPGTSTDLASLFECPVCFDY-----VLPPIIQCQSGHLVCSNCRPKLS-------CCS 71
S G L + ECP+C + + P ++ C GH +C C KL C
Sbjct: 3 SGSSGNLDALREVLECPICMESFTEEQLRPKLLHC--GHTICRQCLEKLLASSINGVRCP 60
Query: 72 TCR 74
C
Sbjct: 61 FCS 63
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 29.5 bits (66), Expect = 0.36
Identities = 15/62 (24%), Positives = 23/62 (37%), Gaps = 10/62 (16%)
Query: 28 GTSTDLASLFECPVCFDYVLPPIIQCQS------GHLVCSNC----RPKLSCCSTCRGPL 77
GT + CP+C D + + GH+ CS C + C TCR +
Sbjct: 7 GTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
Query: 78 GN 79
+
Sbjct: 67 NH 68
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 29.0 bits (65), Expect = 0.46
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 24 SMCPGTSTDLASLFECPVCFD-YVLPPIIQCQSGHLVCSNCRPKL----SCCSTCRGPL 77
S G + ++ EC +C V P + C H+ C C C+ CR +
Sbjct: 3 SGSSGNTAPSLTVPECAICLQTCVHPVSLPC--KHVFCYLCVKGASWLGKRCALCRQEI 59
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 29.0 bits (65), Expect = 0.49
Identities = 13/54 (24%), Positives = 21/54 (38%), Gaps = 10/54 (18%)
Query: 34 ASLFECPVCFDYVLPPIIQCQS------GHLVCSNC----RPKLSCCSTCRGPL 77
++ CP+C D + + GH+ CS C + C TCR +
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 29.9 bits (67), Expect = 0.58
Identities = 22/125 (17%), Positives = 34/125 (27%), Gaps = 35/125 (28%)
Query: 32 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCSTCRGPLGNIRNLAME 86
C +C + P+ + HL C C + S C +CR P
Sbjct: 19 HFVKSISCQICEHILADPV-ETSCKHLFCRICILRCLKVMGSYCPSCRYP---------- 67
Query: 87 KVAETVTFPCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCPCPGASCKWSGALDQVMGHL 146
C L + + CP C +L++ H+
Sbjct: 68 ----------------CFPTDLESPVKSFLNILNSLMVKCPAQD--CNEEVSLEKYNHHV 109
Query: 147 NQSHK 151
SHK
Sbjct: 110 -SSHK 113
>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 = 29.0 bits (65), Expect = 0.59
Identities = 14/59 (23%), Positives = 21/59 (35%), Gaps = 10/59 (16%)
Query: 29 TSTDLASLFECPVCFDYVLPPIIQCQS------GHLVCSNC----RPKLSCCSTCRGPL 77
T + CP+C D + + GH+ CS C + C TCR +
Sbjct: 3 TGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 30.4 bits (68), Expect = 0.65
Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 8/67 (11%)
Query: 32 DLASLFECPVCFDYVLPP-IIQCQSGHLVCSNC----RPKLSCCSTCRGPL-GNIRNLAM 85
L + +C +C +Y + + C H CS C + C CR + +L +
Sbjct: 60 VLENELQCIICSEYFIEAVTLNC--AHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVL 117
Query: 86 EKVAETV 92
+ +
Sbjct: 118 DNCINKM 124
>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 = 29.3 bits (66), Expect = 0.79
Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 13/82 (15%)
Query: 22 HPSMCPGTSTDLASLFECPVCFDY-VLPPIIQCQSGHLVCSNC-------RPKLSCCSTC 73
+ + ECP+C + P +C H+ C C + S C C
Sbjct: 7 RVEEVQNVINAMQKILECPICLELIKEPVSTKC--DHIFCKFCMLKLLNQKKGPSQCPLC 64
Query: 74 RGPL--GNIR-NLAMEKVAETV 92
+ + +++ + ++ E +
Sbjct: 65 KNDITKRSLQESTRFSQLVEEL 86
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 28.1 bits (63), Expect = 0.94
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 23 PSMCPGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC 63
S G +L C VC +Y+ P+ I+C GH C C
Sbjct: 2 SSGSSGALENLQVEASCSVCLEYLKEPVIIEC--GHNFCKAC 41
>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 = 28.6 bits (64), Expect = 1.00
Identities = 14/43 (32%), Positives = 17/43 (39%), Gaps = 10/43 (23%)
Query: 39 CPVCFD----YVLPPIIQCQSGHLV-CSNCRPKLSCCSTCRGP 76
C VC + P C GH V C +C +L C CR
Sbjct: 21 CMVCCEEEINSTFCP---C--GHTVCCESCAAQLQSCPVCRSR 58
>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 = 29.9 bits (66), Expect = 1.0
Identities = 6/23 (26%), Positives = 13/23 (56%), Gaps = 3/23 (13%)
Query: 424 FDSNIAQLFADNKN--LGINVTI 444
+++ +L+AD+ L I T+
Sbjct: 25 LQASL-KLYADDSAPALAIKATM 46
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 28.2 bits (63), Expect = 1.0
Identities = 14/44 (31%), Positives = 16/44 (36%), Gaps = 10/44 (22%)
Query: 38 ECPVCFD----YVLPPIIQCQSGHLV-CSNCRPKLSCCSTCRGP 76
C +C D V P C GHLV C C + C C
Sbjct: 27 LCKICMDRNIAIVFVP---C--GHLVTCKQCAEAVDKCPMCYTV 65
>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 75
Score = 28.4 bits (63), Expect = 1.1
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 95 PCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCP 127
C++ C++ L + EHED C R C
Sbjct: 19 VCQH----CDLELSILKLKEHEDYCGARTELCG 47
Score = 28.4 bits (63), Expect = 1.1
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 263 PCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCP 295
C++ C++ L + EHED C R C
Sbjct: 19 VCQH----CDLELSILKLKEHEDYCGARTELCG 47
>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 = 30.5 bits (68), Expect = 1.1
Identities = 12/50 (24%), Positives = 21/50 (42%), Gaps = 8/50 (16%)
Query: 34 ASLFECPVCFD-YVLPPIIQCQSGHLVCSNC-----RPKLSCCSTCRGPL 77
++ C +C + I C GHL+C++C + C CR +
Sbjct: 330 STFQLCKICAENDKDVKIEPC--GHLMCTSCLTSWQESEGQGCPFCRCEI 377
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 30.6 bits (68), Expect = 1.2
Identities = 43/332 (12%), Positives = 91/332 (27%), Gaps = 90/332 (27%)
Query: 139 LDQVMGHLNQSHKTITTLQGEDIVFLATDINLAGAVDWVMMQSCFGHHFMLVLEKQEIDG 198
+D G +K I ++ + V + + D M +S +L K+EID
Sbjct: 7 MDFETGEHQYQYKDILSVFEDAFV---DNFDCKDVQD--MPKS--------ILSKEEID- 52
Query: 199 RQHFFAIVQLIGSRKQAEHF---TYCQSGHLVCSNCRPKLSCCSTCRGPLGNIRNLAMEK 255
I+ T + + + + +
Sbjct: 53 -----HIIMS-KDAVSGTLRLFWTLLSKQE-------------EMVQKFVEEVLRINYKF 93
Query: 256 VAETVTFPCRYQMNGCNVVLLHTEKPEHEDACEYRPYHCPCPGASCKWSGALDQVMGHLN 315
+ + R Q + + + + D + Y+ K AL ++
Sbjct: 94 LMSPIKTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL----- 147
Query: 316 QSHKTI----------TTLQGEDIVFLATDINLAGAVDWVMMQSCFGHHFMLVLEKQEID 365
+ K + T + + + + + W+ +++C VLE +
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE--TVLEMLQ-- 203
Query: 366 GRQHFFAIVQLIGSRKQAEHFTYRLELNGHRRRLTWEATPRSIHEGIA--SAIMNS---- 419
Y+++ N R IH A ++ S
Sbjct: 204 -------------------KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE 244
Query: 420 DCL-----VFDSNIAQLFADNKNLGINVTIAT 446
+CL V ++ F NL + + T
Sbjct: 245 NCLLVLLNVQNAKAWNAF----NLSCKILLTT 272
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 28.1 bits (63), Expect = 1.4
Identities = 18/82 (21%), Positives = 27/82 (32%), Gaps = 16/82 (19%)
Query: 23 PSMCPGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC----------RPKLSCCS 71
M + CP+C + + P+ C H C C C
Sbjct: 6 SGMASSVLEMIKEEVTCPICLELLKEPVSADC--NHSFCRACITLNYESNRNTDGKGNCP 63
Query: 72 TCRG--PLGNIR-NLAMEKVAE 90
CR P GN++ NL + + E
Sbjct: 64 VCRVPYPFGNLKPNLHVANIVE 85
>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 = 29.2 bits (63), Expect = 2.6
Identities = 20/60 (33%), Positives = 22/60 (36%), Gaps = 4/60 (6%)
Query: 19 EPTHPSMCPGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLV-CSNCRPKLSCCSTCRGP 76
E L C VC D + + I C GHLV C C P L C CRG
Sbjct: 278 EDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPC--GHLVVCQECAPSLRKCPICRGI 335
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 26.6 bits (59), Expect = 3.1
Identities = 11/42 (26%), Positives = 15/42 (35%), Gaps = 4/42 (9%)
Query: 38 ECPVCFD-YVLPPIIQCQSGHLVCSNCRPKLS-CCSTCRGPL 77
C C P ++ C H +CS C C C+ P
Sbjct: 8 RCQQCQAEAKCPKLLPC--LHTLCSGCLEASGMQCPICQAPW 47
>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 = 26.7 bits (59), Expect = 3.1
Identities = 14/56 (25%), Positives = 18/56 (32%), Gaps = 10/56 (17%)
Query: 26 CPGTSTDLASLFECPVCFD----YVLPPIIQCQSGHLV-CSNCRPKLSCCSTCRGP 76
G + +C VC + +VL P C H C C C CR
Sbjct: 5 SSGVEPSEENSKDCVVCQNGTVNWVLLP---C--RHTCLCDGCVKYFQQCPMCRQF 55
>3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein
structure initiati northeast structural genomics
consortium; 2.60A {Desulfitobacterium hafniense}
Length = 126
Score = 28.0 bits (63), Expect = 3.4
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 195 EIDGRQHFFAIVQLIGSRKQAE 216
+ FAI++ + ++A
Sbjct: 93 KWHNEPCLFAIIKDLSKEERAS 114
Score = 28.0 bits (63), Expect = 3.4
Identities = 4/22 (18%), Positives = 10/22 (45%)
Query: 363 EIDGRQHFFAIVQLIGSRKQAE 384
+ FAI++ + ++A
Sbjct: 93 KWHNEPCLFAIIKDLSKEERAS 114
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 26.6 bits (59), Expect = 4.4
Identities = 13/48 (27%), Positives = 17/48 (35%), Gaps = 10/48 (20%)
Query: 37 FECPVCFDYVLPPI-IQCQSGHLVCSNC-------RPKLSCCSTCRGP 76
CP+C D + P+ I C GH C C C C+
Sbjct: 21 VICPICLDILQKPVTIDC--GHNFCLKCITQIGETSCGFFKCPLCKTS 66
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 26.2 bits (58), Expect = 5.4
Identities = 11/37 (29%), Positives = 13/37 (35%), Gaps = 2/37 (5%)
Query: 27 PGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC 63
G L EC +C D I+ C H C C
Sbjct: 6 SGRVKQLTDEEECCICMDGRADLILPC--AHSFCQKC 40
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
DNA-binding, DNA- directed RNA polymerase, isopeptide
bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Length = 345
Score = 28.0 bits (61), Expect = 7.6
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 29 TSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC 63
+L + CP C Y + + G +VC+ C
Sbjct: 14 RGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALC 48
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 25.8 bits (56), Expect = 9.1
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 8/56 (14%)
Query: 29 TSTDLASLFECPVC---FDYVLPPIIQCQSGHLVCSNCRPKL-----SCCSTCRGP 76
+ ECP+C + C G+ +C C ++ C CR P
Sbjct: 4 SPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59
>2yuc_A TNF receptor-associated factor 4; ZF-TRAF, cysteine-rich domain
associated with ring and TRAF domains protein 1,
malignant 62; NMR {Homo sapiens}
Length = 76
Score = 25.7 bits (56), Expect = 9.5
Identities = 11/58 (18%), Positives = 18/58 (31%), Gaps = 9/58 (15%)
Query: 96 CRYQM----NGCNVVLLHTEKPEH-EDACEYRPYHCPCPGASCKWSGALDQVMGHLNQ 148
C + + N C + L + P H + C R C C + + H
Sbjct: 12 CSFNVIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCE----FCGCDFSGEAYESHEGM 65
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
0.324 0.136 0.447
Gapped
Lambda K H
0.267 0.0505 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,887,149
Number of extensions: 410245
Number of successful extensions: 1457
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1401
Number of HSP's successfully gapped: 138
Length of query: 446
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 349
Effective length of database: 3,993,456
Effective search space: 1393716144
Effective search space used: 1393716144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 59 (27.0 bits)