RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3978
(243 letters)
>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 = 61.1 bits (148), Expect = 2e-12
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 4/63 (6%)
Query: 82 NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSF 140
E +C IC++ R ++ C C+ CI +L CP C + L +L +
Sbjct: 20 AEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQ---CPHCRAPLQLRELVNC 76
Query: 141 RSV 143
R
Sbjct: 77 RWA 79
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 60.9 bits (148), Expect = 2e-12
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 82 NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS 139
++ ++C IC + + +C H +C CI +L+ +CP C V DLK+
Sbjct: 20 DDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYK----TQCPTCCVTVTEPDLKN 74
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 59.9 bits (145), Expect = 3e-12
Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 5/72 (6%)
Query: 82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR 141
+C IC + P +T+C H FC C L + + +C IC + G +
Sbjct: 13 EIPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRAT----PRCYICDQPTG-GIFNPAK 67
Query: 142 SVIKRARAVNEE 153
++ + +
Sbjct: 68 ELMAKLQKSGPS 79
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 58.7 bits (142), Expect = 5e-12
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+C ICL P C H FC+ C+ L ++C +C
Sbjct: 14 TVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLG----KRCALC 55
>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 = 58.0 bits (141), Expect = 1e-11
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 3/59 (5%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRK---CPICYEAVHLGDLK 138
E++ CPICL+L P CGH C CI + S CP+C + L+
Sbjct: 11 EEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQ 69
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 57.8 bits (140), Expect = 1e-11
Identities = 20/56 (35%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
E++ CPICLD+ + P CGH FC CI + + KCP+C +V ++
Sbjct: 19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGE-TSCGFFKCPLCKTSVRKNAIR 73
>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 = 58.6 bits (142), Expect = 2e-11
Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
+ ++CPICL+L + P T+C H FC C+L L + CP+C + L+
Sbjct: 20 KILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQ-CPLCKNDITKRSLQ 74
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 57.3 bits (139), Expect = 2e-11
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYL--ALSDKSWRKCPICYEAVHLGDLK 138
E++ CPICL+L P CGH FC C+ ++ DK CP+C + +++
Sbjct: 18 EEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR 75
>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 = 58.0 bits (140), Expect = 3e-11
Identities = 18/76 (23%), Positives = 32/76 (42%), Gaps = 10/76 (13%)
Query: 83 EDIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS-- 139
+ ++C C ++ R P + C H FC C+ + CP+CY + DLK
Sbjct: 21 KLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIG------TGCPVCYTPAWIQDLKINR 74
Query: 140 -FRSVIKRARAVNEEV 154
S+I+ + +
Sbjct: 75 QLDSMIQLCSKLRNLL 90
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 57.0 bits (138), Expect = 4e-11
Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 2/58 (3%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYL--ALSDKSWRKCPICYEAVHLGDLK 138
E++ CPICL+L + P C H FC CI + CP+C G+LK
Sbjct: 18 EEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK 75
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 58.1 bits (140), Expect = 5e-11
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 4/62 (6%)
Query: 67 QLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCP 126
Q K E + + +++C IC + C H FC CI ++ K +CP
Sbjct: 47 QAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWM----KRKIECP 102
Query: 127 IC 128
IC
Sbjct: 103 IC 104
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 55.9 bits (135), Expect = 5e-11
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 11/62 (17%)
Query: 83 EDIKCPICLDL-------PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG 135
+ CPIC+D R T CGH FC C+ L K+ CP C + ++
Sbjct: 2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTCRKKINHK 57
Query: 136 DL 137
Sbjct: 58 RY 59
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 55.4 bits (134), Expect = 6e-11
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+ C +CL+ + P + CGH FC CI + ++ + CP+C
Sbjct: 14 VEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFP-CPVC 58
>2ecy_A TNF receptor-associated factor 3; metal binding protein, structural
genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 55.6 bits (134), Expect = 7e-11
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 3/55 (5%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
+ KC C + +P+ T CGH FC C+ L+ S KC C E++ +
Sbjct: 14 DKYKCEKCHLVLCSPKQTECGHRFCESCMAALLS---SSSPKCTACQESIVKDKV 65
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 54.7 bits (132), Expect = 1e-10
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
E++ CPICLD+ + P CGH FC CI S ++ CP+C
Sbjct: 19 EEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFK-CPLC 63
>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 = 56.5 bits (136), Expect = 1e-10
Identities = 20/98 (20%), Positives = 32/98 (32%), Gaps = 5/98 (5%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS 142
+ +C IC+++ P C H C PC + +K+ CP C V R
Sbjct: 14 SECQCGICMEILVEPVTLPCNHTLCKPCFQSTV---EKASLCCPFCRRRVSSWTRYHTRR 70
Query: 143 VIKRARAVNEEVTFQLMKR--ERGSTVVSPVAQWDFHP 178
+ + + R S S D+ P
Sbjct: 71 NSLVNVELWTIIQKHYPRECKLRASGQESEEVADDYQP 108
>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 = 56.1 bits (135), Expect = 2e-10
Identities = 13/46 (28%), Positives = 16/46 (34%), Gaps = 3/46 (6%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
E +C C +L P T C H C C+ CP C
Sbjct: 51 ETFQCICCQELVFRPITTVCQHNVCKDCLDRSF---RAQVFSCPAC 93
>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 = 56.0 bits (135), Expect = 2e-10
Identities = 19/64 (29%), Positives = 26/64 (40%), Gaps = 3/64 (4%)
Query: 82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFR 141
+CPICL R T CGH FC CI+ + + KCP+ E + L
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIR---DAGHKCPVDNEILLENQLFPDN 72
Query: 142 SVIK 145
+
Sbjct: 73 FAKR 76
>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 = 54.1 bits (130), Expect = 2e-10
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 11/63 (17%)
Query: 82 NEDIKCPICLDL-------PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL 134
+ + CPIC+D R T CGH FC C+ L K+ CP C + ++
Sbjct: 8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTCRKKINH 63
Query: 135 GDL 137
Sbjct: 64 KRY 66
>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 = 56.5 bits (136), Expect = 3e-10
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 82 NEDIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
+ ++ CPICLD+ + T+ C H FC CI+ L +K CP C + +
Sbjct: 52 HSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKE---CPTCRKKLV 101
>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 = 54.9 bits (132), Expect = 3e-10
Identities = 22/68 (32%), Positives = 27/68 (39%), Gaps = 7/68 (10%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL----K 138
+ I C IC + P T C H FC CIL L CP C DL K
Sbjct: 22 KSISCQICEHILADPVETSCKHLFCRICILRCL---KVMGSYCPSCRYPCFPTDLESPVK 78
Query: 139 SFRSVIKR 146
SF +++
Sbjct: 79 SFLNILNS 86
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 52.6 bits (126), Expect = 1e-09
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 11/54 (20%)
Query: 82 NEDIKCPICLD-------LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+ + CPIC+D R T CGH FC C+ L K+ CP C
Sbjct: 13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTC 62
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 52.4 bits (126), Expect = 1e-09
Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 82 NEDIKCPICLD-LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
I C IC L A +T C H FC CI+ + S +CP C VH
Sbjct: 13 TPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYS----NRCPKCNIVVH 61
>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 = 56.3 bits (135), Expect = 2e-09
Identities = 11/46 (23%), Positives = 19/46 (41%), Gaps = 3/46 (6%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
C IC + + ++ CGH C C+ + + + CP C
Sbjct: 331 TFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQ---ESEGQGCPFC 373
>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 = 53.9 bits (129), Expect = 2e-09
Identities = 12/46 (26%), Positives = 15/46 (32%), Gaps = 3/46 (6%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+ C C +L P T C H C C+ CP C
Sbjct: 77 QSFMCVCCQELVYQPVTTECFHNVCKDCLQRSF---KAQVFSCPAC 119
>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 = 50.9 bits (122), Expect = 4e-09
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 83 EDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPIC 128
+++ C IC D+ + CG+ +C CI L SD+ CP C
Sbjct: 14 DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDE--HTCPTC 58
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 50.1 bits (120), Expect = 6e-09
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 7/53 (13%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLG 135
+ ++C C + P++ C H C C+ + S +CPIC LG
Sbjct: 5 QFLRCQQCQAEAKCPKLLPCLHTLCSGCL-------EASGMQCPICQAPWPLG 50
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 49.8 bits (119), Expect = 2e-08
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 83 EDIKCPICLDLPRAPQMT-RCGHCFCWPCILHYLALSDKSWRKCPIC 128
+++ C IC D+ + CG+ +C CI L SD+ CP C
Sbjct: 12 DELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEH--TCPTC 56
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 49.7 bits (119), Expect = 2e-08
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 5/63 (7%)
Query: 83 EDIKCPICLDL----PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLK 138
E ++CPIC++ P++ CGH C C+ LA S R CP C + + L
Sbjct: 14 EVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVR-CPFCSKITRITSLT 72
Query: 139 SFR 141
Sbjct: 73 QLT 75
>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 = 52.6 bits (125), Expect = 2e-08
Identities = 19/76 (25%), Positives = 27/76 (35%), Gaps = 8/76 (10%)
Query: 84 DIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWRKCPI--CYEAVHLGDLK-- 138
++ CPI AP +C H F I +YL R CP C + V + D
Sbjct: 181 ELTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTT--RDCPQAACSQVVSMRDFVRD 238
Query: 139 -SFRSVIKRARAVNEE 153
K A+ +
Sbjct: 239 PIMELRCKIAKMKESQ 254
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 50.6 bits (120), Expect = 2e-08
Identities = 19/55 (34%), Positives = 24/55 (43%), Gaps = 11/55 (20%)
Query: 81 GNEDIKCPICLDL-------PRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
G+ + CPIC+D R T CGH FC C+ L K+ CP C
Sbjct: 4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTC 54
Score = 32.1 bits (72), Expect = 0.061
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 11/54 (20%)
Query: 82 NEDIKCPICLDLPRAP-------QMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+ + CPIC+D T CGH FC C+ L K+ CP C
Sbjct: 70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL----KNANTCPTC 119
>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 = 50.5 bits (120), Expect = 3e-08
Identities = 13/58 (22%), Positives = 20/58 (34%), Gaps = 3/58 (5%)
Query: 82 NEDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKS 139
C C ++ R P +CGH +C C+ L + C C + S
Sbjct: 29 EAKYLCSACRNVLRRPFQAQCGHRYCSFCLASIL---SSGPQNCAACVHEGIYEEGIS 83
>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 = 49.4 bits (118), Expect = 3e-08
Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 5/53 (9%)
Query: 82 NEDIKCPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
N + C +C C H FC CI+ YL S + CPIC VH
Sbjct: 13 NPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETS----KYCPICDVQVH 61
>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 = 50.5 bits (120), Expect = 4e-08
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDLKSFRS 142
+CPICL R T CGH FC CI+ + + KCP+ E + L
Sbjct: 17 SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH---KCPVDNEILLENQLFPDNF 73
Query: 143 VIK 145
+
Sbjct: 74 AKR 76
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 46.6 bits (111), Expect = 1e-07
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 83 EDIKCPICLDLPR-APQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+CPICL+ P C H FC+ CI ++ + CP+C
Sbjct: 4 VAERCPICLEDPSNYSMALPCLHAFCYVCITRWIRQN----PTCPLC 46
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 45.1 bits (107), Expect = 5e-07
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
++ +C IC+D RA + C H FC CI + R CPIC
Sbjct: 14 DEEECCICMD-GRADLILPCAHSFCQKCIDKWSDRH----RNCPIC 54
>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 = 42.3 bits (99), Expect = 9e-06
Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 9/82 (10%)
Query: 81 GNEDIKCPICLDLPRAP-QMTRCGHCFCWPCILHYLALSDKSWR--KCPI---CYEAVHL 134
G+ CPI + + P + CGH + I+ + K + CP + +
Sbjct: 4 GSSGFTCPITKEEMKKPVKNKVCGHTYEEDAIVRMIESRQKRKKKAYCPQIGCSHTDIRK 63
Query: 135 GDLK---SFRSVIKRARAVNEE 153
DL + R I+
Sbjct: 64 SDLIQDEALRRAIENHNKKRHR 85
>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 = 2e-05
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 87 CPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
C I +PR P ++ F + Y+ + PI E + + ++
Sbjct: 6 CAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDT----GNDPITNEPLSIEEI 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 = 40.8 bits (96), Expect = 3e-05
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 7/58 (12%)
Query: 74 IQQIRGFGNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWRKCPIC 128
+ + G +++ CPIC + C H F PC+ +L S CP+C
Sbjct: 30 VTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSG----TCPVC 83
>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 = 40.6 bits (95), Expect = 3e-05
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 7/49 (14%)
Query: 87 CPICLDLPRAPQMTR---CGHCFCWPCILHYLAL----SDKSWRKCPIC 128
C +CL QMT C FC C+ Y+ L ++ CP
Sbjct: 8 CKLCLGEYPVEQMTTIAQCQCIFCTLCLKQYVELLIKEGLETAISCPDA 56
>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 = 41.0 bits (95), Expect = 4e-05
Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 22/85 (25%)
Query: 63 GDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAP------------------QMTRCGH 104
G+P+Q+++ +Y ++++ ED C IC++ ++T+C H
Sbjct: 7 GEPEQVIR-KYTEELKVAPEED--CIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSH 63
Query: 105 CFCWPCILHYLALSDKSWR-KCPIC 128
F C+L +K +CP C
Sbjct: 64 AFHLLCLLAMYCNGNKDGSLQCPSC 88
>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 = 39.7 bits (93), Expect = 5e-05
Identities = 14/57 (24%), Positives = 22/57 (38%), Gaps = 21/57 (36%)
Query: 82 NEDIKCPICLD----------LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
++CP+C + LP C H F CI+ +L + CP+C
Sbjct: 13 GSGLECPVCKEDYALGESVRQLP-------CNHLFHDSCIVPWL----EQHDSCPVC 58
>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 = 38.8 bits (91), Expect = 5e-05
Identities = 14/46 (30%), Positives = 18/46 (39%), Gaps = 8/46 (17%)
Query: 87 CPICLD----LPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
CPICL+ + CGH C L K +CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEML----KEGYRCPLC 49
>2ep4_A Ring finger protein 24; zinc binding, ubiquitin, E3 enzyme,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 74
Score = 38.2 bits (89), Expect = 2e-04
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 7/51 (13%)
Query: 81 GNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWRKCPIC 128
N C +CL+ + C H F C++ +L + + CP+C
Sbjct: 12 LNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWL----EVRKVCPLC 58
>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 = 36.8 bits (85), Expect = 6e-04
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 4/49 (8%)
Query: 82 NEDIK-CPICLDLPRAPQM-TRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+ +K C IC L Q CG PC+ Y + + +CP C
Sbjct: 12 PDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--RCPHC 58
>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 = 36.7 bits (85), Expect = 6e-04
Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 9/47 (19%)
Query: 83 EDIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
E + C +C + CGH C C + CP+C
Sbjct: 17 EAMLCMVCCEEEINSTFCPCGHTVCCESCA--------AQLQSCPVC 55
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 38.9 bits (90), Expect = 7e-04
Identities = 22/106 (20%), Positives = 39/106 (36%), Gaps = 9/106 (8%)
Query: 26 LMQSLASVHKHKYNKEQFLQANCQ--FVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNE 83
L+ L K EQ LQ Q +++ ++ +H ++ ++ + +
Sbjct: 124 LVDQLKGKKMRKKEAEQVLQKFVQNKWLIEKEGEFTLHGRAILEMEQYIRET----YPDA 179
Query: 84 DIKCPICLDLPRAPQMTR-CGHCFCWPCILHYLALSDKSWRKCPIC 128
C IC L Q CG PC+ Y + + +CP C
Sbjct: 180 VKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEP--RCPHC 223
>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 = 36.1 bits (83), Expect = 7e-04
Identities = 15/51 (29%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 83 EDIKCPICL-DLPRAPQM----TRCGHCFCWPCILHYLALSDKSWRKCPIC 128
+D CP C R P + CGH C C+ L + CP C
Sbjct: 2 DDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCV---DLLFVRGAGNCPEC 49
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 35.9 bits (83), Expect = 0.001
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 9/47 (19%)
Query: 83 EDIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
E+ C IC+D A CGH C C ++ KCP+C
Sbjct: 24 EEKLCKICMDRNIAIVFVPCGHLVTCKQC--------AEAVDKCPMC 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 = 35.9 bits (83), Expect = 0.001
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 9/48 (18%)
Query: 82 NEDIKCPICLDLPRAPQMTRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
C +C + + C H C C C+ K +++CP+C
Sbjct: 13 ENSKDCVVCQNGTVNWVLLPCRHTCLCDGCV--------KYFQQCPMC 52
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 36.4 bits (83), Expect = 0.001
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 87 CPIC-LDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVH 133
C C L + +M C H FC+ C + + DK CP C + V
Sbjct: 4 CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDK---MCPGCSDPVQ 48
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 35.8 bits (82), Expect = 0.001
Identities = 10/51 (19%), Positives = 19/51 (37%), Gaps = 7/51 (13%)
Query: 82 NEDIKCPICLDLPRAPQMT----RCGHCFCWPCILHYLALSDKSWRKCPIC 128
+ ++CP+C++ + CG+ C C + CP C
Sbjct: 9 EDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENG---LCPAC 56
>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 = 34.7 bits (80), Expect = 0.002
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 81 GNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWRKCPIC 128
+ + KC ICL + + R C H F C+ +L + +KCPIC
Sbjct: 11 EDTEEKCTICLSILEEGEDVRRLPCMHLFHQVCVDQWL----ITNKKCPIC 57
>1x4j_A Ring finger protein 38; structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 75
Score = 34.6 bits (80), Expect = 0.003
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 81 GNEDIKCPICLDLPRAPQMTR---CGHCFCWPCILHYLALSDKSWRKCPIC 128
+E C +C+ + Q+ R C H F C+ +L K+ R CPIC
Sbjct: 20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWL----KANRTCPIC 66
>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 = 34.4 bits (79), Expect = 0.003
Identities = 13/50 (26%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 82 NEDIKCPICLDLPRAPQM--TRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
N C IC P+ + + GH C+ C K + CP+C
Sbjct: 6 NAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLK----KRNKPCPVC 51
>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 = 33.7 bits (77), Expect = 0.006
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 82 NEDIKCPICLDLPRAPQM--TRCGH-CFCWPCILHYLALSDKSWRKCPIC 128
N C +C PR + R GH C+ C K+ CPIC
Sbjct: 5 NLLKPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLK----KAGASCPIC 50
>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 = 34.0 bits (77), Expect = 0.007
Identities = 12/53 (22%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 81 GNEDIKCPICLDLPRAPQMTRC----GHCFCWPCILHYL-ALSDKSWRKCPIC 128
+ + C IC + +C H FC+PC + A CP
Sbjct: 12 NSGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQGATGEVYCPSG 64
>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 = 34.9 bits (78), Expect = 0.019
Identities = 19/90 (21%), Positives = 31/90 (34%), Gaps = 9/90 (10%)
Query: 44 LQANCQFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCG 103
L+ + + P + V +++ E+ C +C+D + CG
Sbjct: 255 LKEIDSTLYKNLFVDKNMKYIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCG 314
Query: 104 H-CFCWPCILHYLALSDKSWRKCPICYEAV 132
H C C S RKCPIC +
Sbjct: 315 HLVVCQEC--------APSLRKCPICRGII 336
>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 = 34.6 bits (78), Expect = 0.027
Identities = 13/57 (22%), Positives = 18/57 (31%), Gaps = 5/57 (8%)
Query: 84 DIKCPICLDLPRAPQMTR-CGH--CFCWPCILHYLALSDKSWRKCPICYEAVHLGDL 137
+ CP+ P C H CF L +W CP+C + L
Sbjct: 215 SLMCPLGKMRLTIPCRAVTCTHLQCFDAALYLQM-NEKKPTW-ICPVCDKKAAYESL 269
>1iym_A EL5; ring-H2 finger, ubiquitin ligase, DNA binding protein; NMR
{Oryza sativa} SCOP: g.44.1.1
Length = 55
Score = 31.4 bits (72), Expect = 0.027
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 12/54 (22%)
Query: 81 GNEDIKCPICL------DLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPIC 128
++ ++C +CL + R + RCGH F C+ +L S CP+C
Sbjct: 2 MDDGVECAVCLAELEDGEEAR--FLPRCGHGFHAECVDMWL----GSHSTCPLC 49
>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 = 34.1 bits (77), Expect = 0.029
Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 84 DIKCPICLDLPRAPQMTR-CGH--CFCWPCILHYLALSDKSWRKCPICYEAVHLGDL--- 137
++CPI + P + C H CF LH W +CP+C + L +L
Sbjct: 249 SLQCPISYTRMKYPSKSINCKHLQCFDALWFLHSQLQIPT-W-QCPVCQIDIALENLAIS 306
Query: 138 KSFRSVIKRARAVNEEVTF 156
+ +++ + E+V
Sbjct: 307 EFVDDILQNCQKNVEQVEL 325
>3k1l_B Fancl; UBC, ring, RWD, ligase; HET: MAL CIT; 3.20A {Drosophila
melanogaster}
Length = 381
Score = 33.7 bits (76), Expect = 0.049
Identities = 13/62 (20%), Positives = 22/62 (35%), Gaps = 15/62 (24%)
Query: 82 NEDIKCPIC----LDLPRAPQMT----RCGHCFCWPCILHYLALSDKSWR-------KCP 126
NE+++C IC LD P ++ +C C+ + +CP
Sbjct: 306 NEELRCNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCP 365
Query: 127 IC 128
C
Sbjct: 366 FC 367
>2ecl_A Ring-box protein 2; RNF7, ring domian, zinc-binding domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 30.3 bits (68), Expect = 0.11
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 8/46 (17%)
Query: 87 CPICLDLPRAPQMTR----CGHCFCWPCILHYLALSDKSWRKCPIC 128
C C + C H F C+ ++ K +CP+C
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWV----KQNNRCPLC 70
>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 = 32.2 bits (73), Expect = 0.12
Identities = 11/62 (17%), Positives = 25/62 (40%)
Query: 54 LGEDYGIHLGDPDQLVKWEYIQQIRGFGNEDIKCPICLDLPRAPQMTRCGHCFCWPCILH 113
+ + ++ D D+L ++ + + + I +L R P +T G + I
Sbjct: 178 IEAKHDKYMADMDELFSQVDEKRKKRDIPDYLCGKISFELMREPCITPSGITYDRKDIEE 237
Query: 114 YL 115
+L
Sbjct: 238 HL 239
>2yw8_A RUN and FYVE domain-containing protein 1; structure genomics,
structural genomics, NPPSFA; 3.00A {Homo sapiens} PDB:
2yqm_A
Length = 82
Score = 30.1 bits (68), Expect = 0.15
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 2/35 (5%)
Query: 101 RCGHCFCWPCILHYLAL--SDKSWRKCPICYEAVH 133
CGH FC C + LAL K R C C+ +
Sbjct: 40 NCGHIFCNTCSSNELALPSYPKPVRVCDSCHTLLL 74
>3t7l_A Zinc finger FYVE domain-containing protein 16; structural genomics
consortium, SGC, lipid BIND protein, transport protein;
1.09A {Homo sapiens}
Length = 90
Score = 29.8 bits (67), Expect = 0.24
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 101 RCGHCFCWPCILHYLAL--SDKSWRKCPICYEAV 132
CG FC C L +K R C +CYE +
Sbjct: 41 ACGKVFCGVCCNRKCKLQYLEKEARVCVVCYETI 74
>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 = 31.6 bits (71), Expect = 0.30
Identities = 29/162 (17%), Positives = 46/162 (28%), Gaps = 63/162 (38%)
Query: 49 QFVVRLGEDYGIHLGDPDQLVKWEYIQQIRGFGN--EDIKCPICLDLPRAPQMTR---CG 103
VV G P L G K P LD R P R
Sbjct: 376 NLVVS---------GPPQSL---------YGLNLTLRKAKAPSGLDQSRIPFSERKLKFS 417
Query: 104 HCF--------------CWPCILHYLALSDKSWR----KCPICYEAVHLG-DLKSFRSVI 144
+ F I L ++ S+ + P+ Y G DL
Sbjct: 418 NRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPV-Y-DTFDGSDL------- 468
Query: 145 KRARAVNEEVTFQLMKRERGSTVVSPVAQWD----FHPTDML 182
R ++ ++ +++ + PV +W+ F T +L
Sbjct: 469 ---RVLSGSISERIVD----CIIRLPV-KWETTTQFKATHIL 502
>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 = 29.1 bits (66), Expect = 0.31
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 3/45 (6%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPI 127
E +CPI L+L + P + G + I +L + CP
Sbjct: 7 EYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGH---KTCPK 48
>1wfk_A Zinc finger, FYVE domain containing 19; riken structural
genomics/proteomics initiative, RSGI, structural
genomics, unknown function; NMR {Mus musculus} SCOP:
g.50.1.1
Length = 88
Score = 29.0 bits (65), Expect = 0.37
Identities = 7/33 (21%), Positives = 12/33 (36%), Gaps = 3/33 (9%)
Query: 101 RCGHCFCWPCILHYLAL---SDKSWRKCPICYE 130
CG FC C+ + + + C C+
Sbjct: 30 NCGRAFCNGCLSFSALVPRAGNTQQKVCKQCHT 62
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 30.7 bits (69), Expect = 0.42
Identities = 8/33 (24%), Positives = 12/33 (36%), Gaps = 3/33 (9%)
Query: 101 RCGHCFCWPCILHYLAL---SDKSWRKCPICYE 130
CG C C + L D+ + C C+
Sbjct: 396 ACGKIVCRNCSRNKYPLKYLKDRMAKVCDGCFG 428
>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania
major}
Length = 84
Score = 28.2 bits (63), Expect = 0.61
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 4/40 (10%)
Query: 101 RCGHCFCWPCILHYLALSDKSWRK----CPICYEAVHLGD 136
CG+ C C H A+ + + C CY A+ +
Sbjct: 42 NCGYVLCGDCSRHRAAIPMRGITEPERVCDACYLALRSSN 81
>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 = 29.7 bits (66), Expect = 0.98
Identities = 21/137 (15%), Positives = 44/137 (32%), Gaps = 29/137 (21%)
Query: 26 LMQSLASVHKHKYNKEQFLQANCQ----FVVRLGEDYGIHLGDPDQLVKWEYIQQIRGF- 80
L+++L +V+ + + +F+ A + F L LG L E+I+++ F
Sbjct: 809 LLKALTTVYINLSEQSEFISAVAKDERSFNRNLFVRAVDILGRKTGLASPEFIEKLLNFA 868
Query: 81 -------------------GNEDIKCPICLDLPRAPQMTRC-GHCFCWPCILHYLALSDK 120
++ P+ + + P + I +L
Sbjct: 869 NKAEEQRKADEEEDLEYGDVPDEFLDPLMYTIMKDPVILPASKMNIDRSTIKAHL----L 924
Query: 121 SWRKCPICYEAVHLGDL 137
S P + L D+
Sbjct: 925 SDSTDPFNRMPLKLEDV 941
>1zbd_B Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB
protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: g.50.1.1
Length = 134
Score = 28.4 bits (62), Expect = 1.1
Identities = 9/54 (16%), Positives = 15/54 (27%), Gaps = 5/54 (9%)
Query: 86 KCPIC-----LDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPICYEAVHL 134
+C +C + + C C C + C IC E +
Sbjct: 57 RCILCGEQLGMLGSASVVCEDCKKNVCTKCGVETSNNRPHPVWLCKICLEQREV 110
>1joc_A EEA1, early endosomal autoantigen 1; FYVE domain, inositol
3-phosphate binding, membrane protein; HET: ITP; 2.20A
{Homo sapiens} SCOP: g.50.1.1 h.1.21.1 PDB: 1hyi_A*
1hyj_A
Length = 125
Score = 27.6 bits (61), Expect = 1.8
Identities = 10/35 (28%), Positives = 14/35 (40%), Gaps = 2/35 (5%)
Query: 101 RCGHCFCWPCILHYLAL--SDKSWRKCPICYEAVH 133
+CG+ FC C S K R C C+ +
Sbjct: 90 QCGNIFCAECSAKNALTPSSKKPVRVCDACFNDLQ 124
>1ryp_N 20S proteasome; multicatalytic proteinase, protein degradation,
antigen processing, hydrolase, protease; 1.90A
{Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_N*
1jd2_M* 1g65_M 1vsy_N 1z7q_N 2f16_M* 2fak_M* 2fny_M*
2gpl_M* 3d29_M* 3dy3_M* 3dy4_M* 3e47_M* 3gpj_M* 3gpt_M*
3gpw_M* 3hye_M* 3l5q_R 3mg0_M* 3mg4_M* ...
Length = 233
Score = 28.1 bits (63), Expect = 2.1
Identities = 8/32 (25%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 56 EDYGIHLGDPDQL--VKWEYIQQIRGFGNEDI 85
++ G+ Q+ +KW++ + I+G+G + I
Sbjct: 202 KNTGLTFKKNLQVENMKWDFAKDIKGYGTQKI 233
>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 = 27.8 bits (61), Expect = 2.5
Identities = 11/38 (28%), Positives = 13/38 (34%), Gaps = 4/38 (10%)
Query: 102 CGHCFCWPCILHYLALSDKSWRK----CPICYEAVHLG 135
CG FC C L K C C+ A+ G
Sbjct: 183 CGQVFCGQCTAKQCPLPKYGIEKEVRVCDGCFAALQRG 220
>1vfy_A Phosphatidylinositol-3-phosphate binding FYVE domain of protein
VPS27; endosome maturation, intracellular trafficking;
1.15A {Saccharomyces cerevisiae} SCOP: g.50.1.1
Length = 73
Score = 26.2 bits (58), Expect = 2.6
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 4/34 (11%)
Query: 101 RCGHCFCWPCILHYLALSDKSWRK----CPICYE 130
CG FC + + L D + C C+E
Sbjct: 32 SCGGVFCQEHSSNSIPLPDLGIYEPVRVCDSCFE 65
>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease,
NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP:
d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M*
3nzj_M* 3nzw_M* 3nzx_M*
Length = 266
Score = 27.8 bits (62), Expect = 2.9
Identities = 8/32 (25%), Positives = 19/32 (59%), Gaps = 2/32 (6%)
Query: 56 EDYGIHLGDPDQL--VKWEYIQQIRGFGNEDI 85
++ G+ Q+ +KW++ + I+G+G + I
Sbjct: 235 KNTGLTFKKNLQVENMKWDFAKDIKGYGTQKI 266
>3ro8_A Endo-1,4-beta-xylanase; glycosyl hydrolase family 10, GH10,
(beta/alpha)8 fold, XYLA hydrolase; 1.34A {Paenibacillus
SP} PDB: 3rdk_A 4e4p_A
Length = 341
Score = 27.5 bits (61), Expect = 3.7
Identities = 11/44 (25%), Positives = 15/44 (34%), Gaps = 7/44 (15%)
Query: 70 KWEYIQQIRG---FGNEDIKCPICLDLPRAPQMTRCGHCFCWPC 110
K + +Q +G F D +D A M GH W
Sbjct: 48 KPDALQPTKGNFTFTAADA----MIDKVLAEGMKMHGHVLVWHQ 87
>2vhf_A Ubiquitin carboxyl-terminal hydrolase CYLD; cytokine signalling,
linkage specificity, deubiquitinating enzyme, Lys63-
linked, anti-oncogene; 2.8A {Homo sapiens}
Length = 374
Score = 27.8 bits (61), Expect = 3.9
Identities = 14/50 (28%), Positives = 17/50 (34%), Gaps = 5/50 (10%)
Query: 88 PICLDLPRAPQMTRCG---HCFCWPCILHYLALSDKSWRKCPICYEAVHL 134
+ D PR Q CG C C + K + C C VHL
Sbjct: 197 DLLEDTPR--QCRICGGLAMYECRECYDDPDISAGKIKQFCKTCNTQVHL 244
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate;
signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Length = 226
Score = 27.0 bits (59), Expect = 4.6
Identities = 11/34 (32%), Positives = 12/34 (35%), Gaps = 4/34 (11%)
Query: 101 RCGHCFCWPCILHYLALSDKSWRK----CPICYE 130
CG FC C Y + K C CYE
Sbjct: 185 ACGQIFCGKCSSKYSTIPKFGIEKEVRVCEPCYE 218
>2pv0_B DNA (cytosine-5)-methyltransferase 3-like; DNMT3L, unmethylated
H3K4, de novo DNA methylation, transferase regulator;
HET: DNA; 3.30A {Homo sapiens} PDB: 2pvc_B*
Length = 386
Score = 27.2 bits (59), Expect = 5.6
Identities = 17/153 (11%), Positives = 42/153 (27%), Gaps = 22/153 (14%)
Query: 102 CGHCFCWPCILHYL-------ALSDKSWRKCPICYEAVHLGDLKSFRSVIKRARAVNEEV 154
C C+C+ C+ + + +W C +C S +++R R ++
Sbjct: 113 CTRCYCFECVDSLVGPGTSGKVHAMSNWV-CYLC-------LPSSRSGLLQRRRKWRSQL 164
Query: 155 TFQLMKRERGSTVVSPVAQWDFHPTDMLMNVSA------KCNAYIAINLDYPAIAPIFSV 208
+ + ++++ ++ D + + V
Sbjct: 165 KAFYDRESENPLEMFETVPVWRRQPVRVLSLFEDIKKELTSLGFLESGSDPGQLKHVVDV 224
Query: 209 QLELPGKLIKTVHNDDAVRCCDSFLIQFIQGGP 241
+ K ++ D V L P
Sbjct: 225 T-DTVRKDVEEWGPFDLVYGATPPLGHTCDRPP 256
>2f9i_B Acetyl-coenzyme A carboxylase carboxyl transferase subunit beta;
zinc ribbon, crotonase superfamily, spiral domain; 1.98A
{Staphylococcus aureus}
Length = 285
Score = 26.8 bits (60), Expect = 6.1
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 122 WRKCPICYEAVHLGDLKS 139
KCP C + ++ +L
Sbjct: 30 MTKCPKCKKIMYTKELAE 47
>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 = 25.4 bits (56), Expect = 7.2
Identities = 8/45 (17%), Positives = 14/45 (31%), Gaps = 4/45 (8%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPI 127
++ + P+ L P G IL +L + P
Sbjct: 28 DEFRDPLMDTLMTDPVRLPSGTIMDRSIILRHL----LNSPTDPF 68
>2kr4_A Ubiquitin conjugation factor E4 B; U-BOX, UFD2, ring, E3 ligase,
UBL conjugation pathway; NMR {Mus musculus}
Length = 85
Score = 25.4 bits (56), Expect = 7.7
Identities = 8/45 (17%), Positives = 14/45 (31%), Gaps = 4/45 (8%)
Query: 83 EDIKCPICLDLPRAPQMTRCGHCFCWPCILHYLALSDKSWRKCPI 127
++ + P+ L P G IL +L + P
Sbjct: 13 DEFRDPLMDTLMTDPVRLPSGTVMDRSIILRHL----LNSPTDPF 53
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase;
NMR {Homo sapiens} SCOP: g.44.1.1
Length = 60
Score = 24.7 bits (54), Expect = 8.5
Identities = 5/11 (45%), Positives = 5/11 (45%)
Query: 100 TRCGHCFCWPC 110
C FCW C
Sbjct: 30 QNCKAEFCWVC 40
>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 = 26.2 bits (57), Expect = 9.4
Identities = 16/51 (31%), Positives = 19/51 (37%), Gaps = 14/51 (27%)
Query: 82 NEDIKCPICLDLPRAPQM---TRCGHCFCWPCILHYLALSDKS------WR 123
N + CP C P P++ G C C L LSDK WR
Sbjct: 19 NIVLTCPECKVYP--PKIVERFSEGDVVCALC---GLVLSDKLVDTRSEWR 64
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
0.325 0.139 0.451
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: 3,740,390
Number of extensions: 212694
Number of successful extensions: 728
Number of sequences better than 10.0: 1
Number of HSP's gapped: 646
Number of HSP's successfully gapped: 101
Length of query: 243
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 152
Effective length of database: 4,160,982
Effective search space: 632469264
Effective search space used: 632469264
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: 56 (26.1 bits)