RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12278
(300 letters)
>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A
{Homo sapiens} PDB: 2an6_A 1k2f_A
Length = 193
Score = 226 bits (576), Expect = 1e-74
Identities = 156/190 (82%), Positives = 171/190 (90%)
Query: 108 VAGTMWFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLN 167
VA ++ FPC+Y +GC I+L HTEK +HE+ CE RPY CPCPGASCKW G+LD VM HL
Sbjct: 1 VANSVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLM 60
Query: 168 QSHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGHHFMLVLEKQEKFDGHQHFFAIV 227
HKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFG HFMLVLEKQEK+DGHQ FFAIV
Sbjct: 61 HQHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGFHFMLVLEKQEKYDGHQQFFAIV 120
Query: 228 QLIGSRKQSENFTYRLELNGHRRRLTWEATPRSIHEGVASAIMNSDCLVFDTNIAQLFAD 287
QLIG+RKQ+ENF YRLELNGHRRRLTWEATPRSIHEG+A+AIMNSDCLVFDT+IAQLFA+
Sbjct: 121 QLIGTRKQAENFAYRLELNGHRRRLTWEATPRSIHEGIATAIMNSDCLVFDTSIAQLFAE 180
Query: 288 NGNLGINVTI 297
NGNLGINVTI
Sbjct: 181 NGNLGINVTI 190
>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 = 51.0 bits (122), Expect = 2e-08
Identities = 21/104 (20%), Positives = 34/104 (32%), Gaps = 11/104 (10%)
Query: 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCPTCRGPLGN---IRNL 103
L S +ECP+C + + Q GH C C R CP L +
Sbjct: 14 PLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDN 72
Query: 104 AMEKVAGTMWFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCP 147
++ ++ C + GC + +H+ CE
Sbjct: 73 FAKREILSLMVKCPNE--GCLHKMELRHLEDHQAHCEFALLEHH 114
>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 = 47.8 bits (113), Expect = 6e-07
Identities = 22/102 (21%), Positives = 32/102 (31%), Gaps = 7/102 (6%)
Query: 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCPTCRGPLGNIRNLAME 106
L S +ECP+C + + Q GH C C R CP L +
Sbjct: 14 PLESKYECPICLMALREAV-QTPCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDN 72
Query: 107 KVAGTM-WFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCP 147
+ + GC + +H+ CE CP
Sbjct: 73 FAKREILSLMVKCPNEGCLHKMELRHLEDHQAHCEFALMDCP 114
>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 = 44.5 bits (105), Expect = 3e-06
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 2/64 (3%)
Query: 35 ISPSSSSNSSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNCRPKL--SCCPT 92
+ P ++S L L C C + + P+ H+ CSNC + CP
Sbjct: 1 MEPDGRGAWAHSRAALDRLEKLLRCSRCTNILREPVCLGGCEHIFCSNCVSDCIGTGCPV 60
Query: 93 CRGP 96
C P
Sbjct: 61 CYTP 64
>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 = 45.1 bits (106), Expect = 3e-06
Identities = 22/116 (18%), Positives = 32/116 (27%), Gaps = 21/116 (18%)
Query: 50 STDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCPTCRGPLGNIRNLA 104
T L + + C C + + P Q Q GH CS C C C ++
Sbjct: 25 GTKLEAKYLCSACRNVLRRPF-QAQCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGIS 83
Query: 105 MEKVAGTMWFPCRYQMN------------GCG-ISLLHTEKPEHEDTCEHRPYLCP 147
+ + + FP GC L + HE C
Sbjct: 84 ILESS--SAFPDNAARREVESLPAVCPSDGCTWKGTLKEYESCHEGRCPLMLLEHH 137
>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 = 43.7 bits (103), Expect = 4e-06
Identities = 14/65 (21%), Positives = 25/65 (38%), Gaps = 5/65 (7%)
Query: 38 SSSSNSSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCPT 92
+S + +A +F C +C + + + L C +C + + CP
Sbjct: 4 HHHHHSHMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPH 63
Query: 93 CRGPL 97
CR PL
Sbjct: 64 CRAPL 68
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 42.4 bits (100), Expect = 6e-06
Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 4/63 (6%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-RPKLS---CCPTCRGPLG 98
SS S+G ++L C +C Y++ + H C +C CP C +
Sbjct: 2 SSGSSGNLSELTPYILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCNIVVH 61
Query: 99 NIR 101
+
Sbjct: 62 QTQ 64
>2csy_A Zinc finger protein 183-like 1; ring finger protein 161, ring
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 81
Score = 42.5 bits (100), Expect = 7e-06
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 7/69 (10%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPII-QCQSGHLVCSNC----RPKLSCCPTCRGPL 97
SS S+G S + F C +C P++ +C H C +C C C P
Sbjct: 2 SSGSSGGSEEEEIPFRCFICRQAFQNPVVTKC--RHYFCESCALEHFRATPRCYICDQPT 59
Query: 98 GNIRNLAME 106
G I N A E
Sbjct: 60 GGIFNPAKE 68
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 41.7 bits (98), Expect = 1e-05
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 8/61 (13%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCPTCRGP 96
SS S+G + ++C C + P +C GH C +C C C+
Sbjct: 2 SSGSSGFVKTVEDKYKCEKCHLVLCSPKQTEC--GHRFCESCMAALLSSSSPKCTACQES 59
Query: 97 L 97
+
Sbjct: 60 I 60
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 40.2 bits (94), Expect = 4e-05
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 7/60 (11%)
Query: 43 SSNSAGTSTDLASLFECPVCFD-YVLPPIIQCQSGHLVCSNCRPKL----SCCPTCRGPL 97
SS S+G + ++ EC +C V P + C H+ C C C CR +
Sbjct: 2 SSGSSGNTAPSLTVPECAICLQTCVHPVSLPC--KHVFCYLCVKGASWLGKRCALCRQEI 59
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 39.9 bits (93), Expect = 5e-05
Identities = 19/67 (28%), Positives = 28/67 (41%), Gaps = 10/67 (14%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPIIQCQS------GHLVCSNC----RPKLSCCPT 92
SS S+GT + CP+C D + + GH+ CS C + CPT
Sbjct: 2 SSGSSGTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPT 61
Query: 93 CRGPLGN 99
CR + +
Sbjct: 62 CRKKINH 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 = 41.9 bits (98), Expect = 5e-05
Identities = 20/82 (24%), Positives = 31/82 (37%), Gaps = 12/82 (14%)
Query: 32 LNNISPSSSSNSSNSAGTSTDLASL---FECPVCFDYVLPP--IIQCQSGHLVCSNC--- 83
L + + ++ SL CP+C D + +C H C++C
Sbjct: 27 LYELQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTKEC--LHRFCADCIIT 84
Query: 84 --RPKLSCCPTCRGPLGNIRNL 103
R CPTCR L + R+L
Sbjct: 85 ALRSGNKECPTCRKKLVSKRSL 106
>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 = 39.9 bits (93), Expect = 1e-04
Identities = 23/125 (18%), Positives = 36/125 (28%), Gaps = 35/125 (28%)
Query: 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCPTCRGPLGNIRNLAME 106
C +C + P+ + HL C C + S CP+CR P
Sbjct: 19 HFVKSISCQICEHILADPV-ETSCKHLFCRICILRCLKVMGSYCPSCRYP---------- 67
Query: 107 KVAGTMWFPCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHL 166
C + L + + CP C +L++ H+
Sbjct: 68 ----------------CFPTDLESPVKSFLNILNSLMVKCPAQD--CNEEVSLEKYNHHV 109
Query: 167 NQSHK 171
SHK
Sbjct: 110 -SSHK 113
>2ct2_A Tripartite motif protein 32; zinc-finger protein HT2A, TAT-
interacting protein, ring domain, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 88
Score = 38.9 bits (91), Expect = 1e-04
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 16/75 (21%)
Query: 43 SSNSAGTSTDLASLFECPVCFDY-----VLPPIIQCQSGHLVCSNCRPKLS-------CC 90
SS S+G L + ECP+C + + P ++ C GH +C C KL C
Sbjct: 2 SSGSSGNLDALREVLECPICMESFTEEQLRPKLLHC--GHTICRQCLEKLLASSINGVRC 59
Query: 91 PTCRGP--LGNIRNL 103
P C + ++ L
Sbjct: 60 PFCSKITRITSLTQL 74
>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 = 40.4 bits (94), Expect = 2e-04
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 52 DLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCPTCRGPLGNIRNL 103
L F C C + V P+ +C H VC +C + ++ CP CR LG +
Sbjct: 74 KLEQSFMCVCCQELVYQPVTTEC--FHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIM 129
>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 = 39.4 bits (92), Expect = 2e-04
Identities = 12/55 (21%), Positives = 17/55 (30%), Gaps = 4/55 (7%)
Query: 51 TDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC----RPKLSCCPTCRGPLGNIR 101
T+L C +C Y + + H C C CP C + R
Sbjct: 10 TELNPHLMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 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 = 38.4 bits (89), Expect = 4e-04
Identities = 13/60 (21%), Positives = 24/60 (40%), Gaps = 8/60 (13%)
Query: 46 SAGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCPTCRGPLGN 99
+ S +C +C + ++ P+ + C H +C C CCP CR + +
Sbjct: 5 LPKDAIPSLSECQCGICMEILVEPVTLPC--NHTLCKPCFQSTVEKASLCCPFCRRRVSS 62
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 37.1 bits (86), Expect = 5e-04
Identities = 22/69 (31%), Positives = 25/69 (36%), Gaps = 13/69 (18%)
Query: 36 SPSSSSNSSNSAGTSTDLASLFE---CPVCFD----YVLPPIIQCQSGHLV-CSNCRPKL 87
S SS + T L L E C +C D V P C GHLV C C +
Sbjct: 2 SSGSSGSLQKEISTEEQLRRLQEEKLCKICMDRNIAIVFVP---C--GHLVTCKQCAEAV 56
Query: 88 SCCPTCRGP 96
CP C
Sbjct: 57 DKCPMCYTV 65
>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 = 40.8 bits (95), Expect = 5e-04
Identities = 57/317 (17%), Positives = 85/317 (26%), Gaps = 138/317 (43%)
Query: 1 ML-VKDMNKG-VDSNPNHTVGIVGSKKHGPGNGLNNISPSSSSNSSNSAGTSTDLASLFE 58
ML + ++ + V N T H P IS L
Sbjct: 338 MLSISNLTQEQVQDYVNKT------NSHLPAGKQVEIS-------------------LVN 372
Query: 59 CPVCFDYVL--PPIIQCQSGHLVCSNCRPKLSCCPTC---RGPLGNIRNLAMEKVAGTMW 113
V+ PP QS + + R K R P K+ +
Sbjct: 373 GAKNL--VVSGPP----QSLYGLNLTLR-KAKAPSGLDQSRIPFSE------RKLKFSNR 419
Query: 114 F-PCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSHKS 172
F P ++ P H L P A D + L
Sbjct: 420 FLP---------VAS-----PFHS------HLLVP----------ASDLINKDL------ 443
Query: 173 ITTLQGEDIVFLATDINLPGAVDWVMMQSCFGHHFMLVLEKQEKFDGHQHFFAIVQLIGS 232
++ F A DI +P V + FDG L
Sbjct: 444 ----VKNNVSFNAKDIQIP--V----------YDT---------FDGS-------DL--- 468
Query: 233 RKQSENFTYRL--ELNGHRRRLTWEATPRSIHEGVASAIMNSDCLVFD----TNIAQLFA 286
R S + + R+ + R + WE T + A+ I L F + + L
Sbjct: 469 RVLSGSISERIVDCII--RLPVKWETTTQF----KATHI-----LDFGPGGASGLGVLTH 517
Query: 287 DN--GNLGINVTI-GTV 300
N G G+ V + GT+
Sbjct: 518 RNKDG-TGVRVIVAGTL 533
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 37.4 bits (87), Expect = 6e-04
Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 11/84 (13%)
Query: 35 ISPSSSSNSSNSAGTSTDLASLFECPVCFDYVLPP--IIQCQSGHLVCSNC----RPKLS 88
+ + S + L C +CF+Y I QC H CS C +
Sbjct: 1 MDSLAESRWPPGLAVMKTIDDLLRCGICFEYFNIAMIIPQC--SHNYCSLCIRKFLSYKT 58
Query: 89 CCPTCRGPL--GNIR-NLAMEKVA 109
CPTC + +++ N ++++
Sbjct: 59 QCPTCCVTVTEPDLKNNRILDELV 82
>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 = 37.6 bits (87), Expect = 0.001
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 8/58 (13%)
Query: 52 DLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-----RPKLSCCPTCRGPLGNIRNL 103
+ F+C C + V PI C H VC +C R ++ CP CR LG +
Sbjct: 48 KVEETFQCICCQELVFRPITTVC--QHNVCKDCLDRSFRAQVFSCPACRYDLGRSYAM 103
>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 = 35.9 bits (83), Expect = 0.001
Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 10/43 (23%)
Query: 59 CPVCFD----YVLPPIIQCQSGHLV-CSNCRPKLSCCPTCRGP 96
C VC + P C GH V C +C +L CP CR
Sbjct: 21 CMVCCEEEINSTFCP---C--GHTVCCESCAAQLQSCPVCRSR 58
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 37.7 bits (87), Expect = 0.001
Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 8/81 (9%)
Query: 38 SSSSNSSNSAGTSTDLASLFECPVCFDYVLPP-IIQCQSGHLVCSNC----RPKLSCCPT 92
+ + + L + +C +C +Y + + C H CS C + CP
Sbjct: 46 MQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNC--AHSFCSYCINEWMKRKIECPI 103
Query: 93 CRGPL-GNIRNLAMEKVAGTM 112
CR + +L ++ M
Sbjct: 104 CRKDIKSKTYSLVLDNCINKM 124
>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 = 35.5 bits (82), Expect = 0.001
Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 10/59 (16%)
Query: 43 SSNSAGTSTDLASLFECPVCFD----YVLPPIIQCQSGHLV-CSNCRPKLSCCPTCRGP 96
SS S+G + +C VC + +VL P C H C C CP CR
Sbjct: 2 SSGSSGVEPSEENSKDCVVCQNGTVNWVLLP---C--RHTCLCDGCVKYFQQCPMCRQF 55
>2ysl_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 73
Score = 35.8 bits (83), Expect = 0.002
Identities = 19/67 (28%), Positives = 24/67 (35%), Gaps = 10/67 (14%)
Query: 38 SSSSNSSNSAGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-------RPKLSC 89
SS S+ S L CP+C D + P+ I C GH C C
Sbjct: 2 SSGSSGMASGQFVNKLQEEVICPICLDILQKPVTIDC--GHNFCLKCITQIGETSCGFFK 59
Query: 90 CPTCRGP 96
CP C+
Sbjct: 60 CPLCKTS 66
>2ecn_A Ring finger protein 141; RNF141, ring domain, zinc-binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 70
Score = 35.1 bits (81), Expect = 0.002
Identities = 18/59 (30%), Positives = 23/59 (38%), Gaps = 6/59 (10%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC----RPKLSCCPTCRGPL 97
SS S+G L EC +C D I+ C H C C + CP CR +
Sbjct: 2 SSGSSGRVKQLTDEEECCICMDGRADLILPC--AHSFCQKCIDKWSDRHRNCPICRLQM 58
>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 = 35.1 bits (81), Expect = 0.003
Identities = 15/68 (22%), Positives = 24/68 (35%), Gaps = 6/68 (8%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC------RPKLSCCPTCRGP 96
SS S+G + C +C D + ++ G+ C C CPTC
Sbjct: 2 SSGSSGEDDPIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQN 61
Query: 97 LGNIRNLA 104
+ L+
Sbjct: 62 DVSPDALS 69
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 34.7 bits (80), Expect = 0.003
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 10/54 (18%)
Query: 54 ASLFECPVCFDYVLPPIIQCQS------GHLVCSNC----RPKLSCCPTCRGPL 97
++ CP+C D + + GH+ CS C + CPTCR +
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 34.8 bits (80), Expect = 0.003
Identities = 15/61 (24%), Positives = 22/61 (36%), Gaps = 10/61 (16%)
Query: 47 AGTSTDLASLFECPVCFDYVLPPIIQCQS------GHLVCSNC----RPKLSCCPTCRGP 96
T + CP+C D + + GH+ CS C + CPTCR
Sbjct: 1 GTTGLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60
Query: 97 L 97
+
Sbjct: 61 I 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 = 37.4 bits (86), Expect = 0.004
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 8/50 (16%)
Query: 54 ASLFECPVCFD-YVLPPIIQCQSGHLVCSNC-----RPKLSCCPTCRGPL 97
++ C +C + I C GHL+C++C + CP CR +
Sbjct: 330 STFQLCKICAENDKDVKIEPC--GHLMCTSCLTSWQESEGQGCPFCRCEI 377
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 33.1 bits (76), Expect = 0.008
Identities = 12/42 (28%), Positives = 16/42 (38%), Gaps = 4/42 (9%)
Query: 58 ECPVCFD-YVLPPIIQCQSGHLVCSNCRPKLS-CCPTCRGPL 97
C C P ++ C H +CS C CP C+ P
Sbjct: 8 RCQQCQAEAKCPKLLPC--LHTLCSGCLEASGMQCPICQAPW 47
>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 = 35.8 bits (82), Expect = 0.008
Identities = 10/46 (21%), Positives = 18/46 (39%)
Query: 38 SSSSNSSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC 83
+ S + +L + CP C Y + + G +VC+ C
Sbjct: 3 TRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALC 48
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 33.1 bits (75), Expect = 0.016
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 8/58 (13%)
Query: 47 AGTSTDLASLFECPVC---FDYVLPPIIQCQSGHLVCSNCRPKL-----SCCPTCRGP 96
+ + ECP+C + C G+ +C C ++ CP CR P
Sbjct: 2 SRSPDAKEDPVECPLCMEPLEIDDINFFPCTCGYQICRFCWHRIRTDENGLCPACRKP 59
>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 = 33.5 bits (77), Expect = 0.021
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 10/48 (20%)
Query: 57 FECPVCFDY-VLPPIIQCQSGHLVCSNC-------RPKLSCCPTCRGP 96
ECP+C + P +C H+ C C + S CP C+
Sbjct: 22 LECPICLELIKEPVSTKC--DHIFCKFCMLKLLNQKKGPSQCPLCKND 67
>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 = 34.6 bits (77), Expect = 0.031
Identities = 21/50 (42%), Positives = 21/50 (42%), Gaps = 10/50 (20%)
Query: 52 DLASLFECPVCFDY----VLPPIIQCQSGHLV-CSNCRPKLSCCPTCRGP 96
L C VC D V P C GHLV C C P L CP CRG
Sbjct: 291 RLQEERTCKVCMDKEVSVVFIP---C--GHLVVCQECAPSLRKCPICRGI 335
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 32.3 bits (74), Expect = 0.032
Identities = 16/69 (23%), Positives = 24/69 (34%), Gaps = 13/69 (18%)
Query: 39 SSSNSSNSAGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC----------RPKL 87
SS +S ++ + CP+C + + P+ C H C C
Sbjct: 2 SSGSSGMASSVLEMIKEEVTCPICLELLKEPVSADC--NHSFCRACITLNYESNRNTDGK 59
Query: 88 SCCPTCRGP 96
CP CR P
Sbjct: 60 GNCPVCRVP 68
>2ysj_A Tripartite motif-containing protein 31; ring-type zinc finger
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 63
Score = 31.6 bits (72), Expect = 0.038
Identities = 19/64 (29%), Positives = 23/64 (35%), Gaps = 10/64 (15%)
Query: 38 SSSSNSSNSAGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-------RPKLSC 89
SS S+ S L CP+C D + P+ I C GH C C
Sbjct: 2 SSGSSGMASGQFVNKLQEEVICPICLDILQKPVTIDC--GHNFCLKCITQIGETSCGFFK 59
Query: 90 CPTC 93
CP C
Sbjct: 60 CPLC 63
>2ecj_A Tripartite motif-containing protein 39; TRIM39, ring domain,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 58
Score = 31.1 bits (71), Expect = 0.048
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPI-IQCQSGHLVCSNC-------RPKLSCCPTC 93
SS S+G +L C VC +Y+ P+ I+C GH C C + CP C
Sbjct: 2 SSGSSGALENLQVEASCSVCLEYLKEPVIIEC--GHNFCKACITRWWEDLERDFPCPVC 58
>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 = 31.5 bits (72), Expect = 0.051
Identities = 16/63 (25%), Positives = 24/63 (38%), Gaps = 14/63 (22%)
Query: 46 SAGTSTDLASLFECPVCFDY-VLPPIIQCQSGHLVCSNC-----------RPKLSCCPTC 93
S+G+S ++ CP+C + P + C GH +C C S CP C
Sbjct: 2 SSGSSGNVQEEVTCPICLELLTEPLSLDC--GHSLCRACITVSNKEAVTSMGGKSSCPVC 59
Query: 94 RGP 96
Sbjct: 60 GIS 62
>3ztg_A E3 ubiquitin-protein ligase RBBP6; PACT, U-BOX, mRNA processing,
mRNA splicing; NMR {Homo sapiens}
Length = 92
Score = 31.7 bits (72), Expect = 0.068
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 6/49 (12%)
Query: 52 DLASLFECPVCFDYVLPPIIQCQSGHLVCSNC------RPKLSCCPTCR 94
+ C +C D + ++ G+ C C CPTC
Sbjct: 9 PIPDELLCLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCH 57
>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 = 31.1 bits (70), Expect = 0.076
Identities = 12/61 (19%), Positives = 19/61 (31%), Gaps = 6/61 (9%)
Query: 43 SSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC------RPKLSCCPTCRGP 96
SS S+G T ++ C +C ++ G + C CP C
Sbjct: 2 SSGSSGRETYPDAVKICNICHSLLIQGQSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDY 61
Query: 97 L 97
Sbjct: 62 W 62
>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 = 33.3 bits (75), Expect = 0.094
Identities = 18/145 (12%), Positives = 37/145 (25%), Gaps = 49/145 (33%)
Query: 156 GGALDQVMAHLNQSHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFGHHFMLVLEKQE 215
G+ +A + + + + W+ +++C VLE +
Sbjct: 159 LGSGKTWVA--------LDVCLSYKVQ-----CKMDFKIFWLNLKNCNSPE--TVLEMLQ 203
Query: 216 KFDGHQHFFAIVQLIGSRKQSENFTYRLELNGHRRRLTWEATPRSIHEGVA--SAIMNS- 272
Y+++ N R IH A ++ S
Sbjct: 204 ----------------------KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 273 ---DCL-----VFDTNIAQLFADNG 289
+CL V + F +
Sbjct: 242 PYENCLLVLLNVQNAKAWNAF-NLS 265
>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 = 30.2 bits (68), Expect = 0.10
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 10/56 (17%)
Query: 49 TSTDLASLFECPVCFDYVLPP---IIQCQSGHLV-CSNCRPKL----SCCPTCRGP 96
+S L ++ C +C P I+ ++GHL+ C C KL CP CR P
Sbjct: 1 SSLPLNAIEPCVICQG--RPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQP 54
>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 = 29.9 bits (67), Expect = 0.20
Identities = 11/58 (18%), Positives = 19/58 (32%), Gaps = 9/58 (15%)
Query: 116 CRYQM----NGCGISLLHTEKPEH-EDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQ 168
C + + N C + L + P H + C R C C + + +H
Sbjct: 12 CSFNVIPCPNRCPMKLSRRDLPAHLQHDCPKRRLKCE----FCGCDFSGEAYESHEGM 65
Score = 26.4 bits (58), Expect = 2.9
Identities = 6/34 (17%), Positives = 7/34 (20%), Gaps = 4/34 (11%)
Query: 115 PCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCPC 148
C + CG HE C
Sbjct: 46 KCEF----CGCDFSGEAYESHEGMCPQESSGPSS 75
>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 = 28.8 bits (64), Expect = 0.40
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 115 PCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCP 147
C++ C + L + EHED C R LC
Sbjct: 19 VCQH----CDLELSILKLKEHEDYCGARTELCG 47
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 28.8 bits (65), Expect = 0.53
Identities = 18/69 (26%), Positives = 26/69 (37%), Gaps = 13/69 (18%)
Query: 39 SSSNSSNSAGTSTDLASLFECPVCFDY-VLPPIIQCQSGHLVCSNC----------RPKL 87
SS +S ++G ++ CP+C + P + C GH C C
Sbjct: 2 SSGSSGMASGILVNVKEEVTCPICLELLTQPLSLDC--GHSFCQACLTANHKKSMLDKGE 59
Query: 88 SCCPTCRGP 96
S CP CR
Sbjct: 60 SSCPVCRIS 68
>2jne_A Hypothetical protein YFGJ; zinc fingers, two zinc, structural
genomics, PSI-2, protein structure initiative; NMR
{Escherichia coli} SCOP: g.41.18.1
Length = 101
Score = 29.2 bits (65), Expect = 0.53
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 59 CPVCFDYVLPPIIQCQSGHLVCSNCR---PKLSCCPTCRGPL 97
CP C +VL +GH C +C + CP C PL
Sbjct: 35 CPQC-QHVLDQ----DNGHARCRSCGEFIEMKALCPDCHQPL 71
>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 = 28.0 bits (62), Expect = 0.64
Identities = 16/52 (30%), Positives = 19/52 (36%), Gaps = 13/52 (25%)
Query: 57 FECPVCFD--YVLPP----IIQCQSGHLVCSNCRPKL-----SCCPTCRGPL 97
CP C Y P + C GH +C +C L CP C PL
Sbjct: 4 QGCPRCKTTKYRNPSLKLMVNVC--GHTLCESCVDLLFVRGAGNCPECGTPL 53
>4ap4_A E3 ubiquitin ligase RNF4; ligase-signalling protein complex,
chimera; 2.21A {Rattus norvegicus}
Length = 133
Score = 29.4 bits (65), Expect = 0.66
Identities = 18/97 (18%), Positives = 25/97 (25%), Gaps = 23/97 (23%)
Query: 57 FECPVCFDYV--------LPPIIQCQSGHLVCSNC----RPKLSCCPTCRGPLGNIRNLA 104
CP+C D L +C GH+ CS C + CPTCR +
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTEC--GHVFCSQCLRDSLKNANTCPTCRKKI------- 58
Query: 105 MEKVAGTMWFPCRYQMNGCGISLLHTEKPEHEDTCEH 141
C I + +
Sbjct: 59 --NHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIV 93
>1n7d_A LDL receptor, low-density lipoprotein receptor; familial
hypercholesterolemia, cholestero metabolism, lipid
transport; HET: NAG BMA MAN KEG; 3.70A {Homo sapiens}
SCOP: b.68.5.1 g.3.11.1 g.3.11.1 g.3.11.1 g.12.1.1
g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 g.12.1.1 PDB: 2lgp_A
1xfe_A 1f5y_A 1ldl_A 1ldr_A 1d2j_A 1f8z_A
Length = 699
Score = 30.5 bits (68), Expect = 0.67
Identities = 22/142 (15%), Positives = 39/142 (27%), Gaps = 2/142 (1%)
Query: 62 CFDYVLPPIIQCQSGHLVCSNCRPKLSCCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMN 121
C D+ PI +C + + +N C G + Q
Sbjct: 281 CRDWSDEPIKECGTNECLDNNGGCSHVCNDLKIGYECLCPDGFQLVAQRRCEDIDECQDP 340
Query: 122 GCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSHKSITTLQGEDI 181
L + ++ CE L P A G + N+ TL +
Sbjct: 341 DTCSQLCVNLEGGYKCQCEEGFQLDPHTKACKAVGS--IAYLFFTNRHEVRKMTLDRSEY 398
Query: 182 VFLATDINLPGAVDWVMMQSCF 203
L ++ A+D + +
Sbjct: 399 TSLIPNLRNVVALDTEVASNRI 420
>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 = 28.2 bits (63), Expect = 0.75
Identities = 24/67 (35%), Positives = 28/67 (41%), Gaps = 18/67 (26%)
Query: 43 SSNSAGTSTDLASLFECPVCFD--------YVLPPIIQCQSGHLVCSNC-RPKLSC---C 90
SS S+GT + S ECPVC + LP C HL +C P L C
Sbjct: 2 SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLP----C--NHLFHDSCIVPWLEQHDSC 55
Query: 91 PTCRGPL 97
P CR L
Sbjct: 56 PVCRKSL 62
>2eod_A TNF receptor-associated factor 4; zinc binding, NF-KB, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 66
Score = 27.6 bits (61), Expect = 0.96
Identities = 9/33 (27%), Positives = 11/33 (33%), Gaps = 4/33 (12%)
Query: 115 PCRYQMNGCGISLLHTEKPEHEDTCEHRPYLCP 147
PC Y C + H+ C P CP
Sbjct: 12 PCTY----CTKEFVFDTIQSHQYQCPRLPVACP 40
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 27.8 bits (62), Expect = 1.1
Identities = 11/52 (21%), Positives = 19/52 (36%), Gaps = 10/52 (19%)
Query: 58 ECPVCFDYVLPPIIQCQSGHLVCSNC-------RPKLSCCPTCRGPLGNIRN 102
CP+C + + H C C P CP C+ P+ ++ +
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT---CPLCKVPVESVVH 55
>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 = 27.5 bits (61), Expect = 1.1
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 58 ECPVCFDY-VLPPIIQCQSGHLV-CSNCRPKL----SCCPTCRGP 96
C +C II ++GHLV C +C +L + CP C+
Sbjct: 9 PCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKE 53
>2jrp_A Putative cytoplasmic protein; two-zinc binding protein,
structural genomics, PSI-2, protein structure
initiative; NMR {Salmonella typhimurium LT2}
Length = 81
Score = 27.6 bits (61), Expect = 1.3
Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 8/42 (19%)
Query: 59 CPVCFDYVLPPIIQCQSGHLVCSNCR---PKLSCCPTCRGPL 97
CPVC + L C C + CP CR PL
Sbjct: 5 CPVC-HHALER----NGDTAHCETCAKDFSLQALCPDCRQPL 41
>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 = 29.5 bits (65), Expect = 1.5
Identities = 10/46 (21%), Positives = 18/46 (39%)
Query: 38 SSSSNSSNSAGTSTDLASLFECPVCFDYVLPPIIQCQSGHLVCSNC 83
+ S + +L + CP C Y + + G +VC+ C
Sbjct: 3 TRESIDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSEGDVVCALC 48
>3vk6_A E3 ubiquitin-protein ligase hakai; HYB, phosphotyrosine binding
domain; 1.90A {Mus musculus}
Length = 101
Score = 27.9 bits (61), Expect = 1.7
Identities = 10/55 (18%), Positives = 16/55 (29%), Gaps = 5/55 (9%)
Query: 59 CPVCFDYVLPPIIQCQSGHLVCSNC-----RPKLSCCPTCRGPLGNIRNLAMEKV 108
C C + H+ C +C + CP C P+ I +
Sbjct: 4 CDKCGLPIKVYGRMIPCKHVFCYDCAILHEKKGDKMCPGCSDPVQRIEQCTRGSL 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 = 28.4 bits (62), Expect = 1.9
Identities = 6/17 (35%), Positives = 10/17 (58%), Gaps = 2/17 (11%)
Query: 283 QLFADNGN--LGINVTI 297
+L+AD+ L I T+
Sbjct: 30 KLYADDSAPALAIKATM 46
>3g5t_A Trans-aconitate 3-methyltransferase; structural genomics, protein
structure initiative, PSI, center for eukaryotic
structural genomics; HET: MSE SAH T8N; 1.12A
{Saccharomyces cerevisiae}
Length = 299
Score = 28.9 bits (64), Expect = 2.1
Identities = 9/49 (18%), Positives = 18/49 (36%), Gaps = 3/49 (6%)
Query: 161 QVMAHLNQSHKSITTLQG--EDIVFLATDINLPGAVDWVMMQSCFGHHF 207
+ ++K+++ +D FL D +D + C H F
Sbjct: 79 VIKEGSPDTYKNVSFKISSSDDFKFLGADSVDKQKIDMITAVECA-HWF 126
>3p9z_A Uroporphyrinogen III cosynthase (HEMD); MCSG, PSI2, structural
genomics, protein structure initiativ midwest center for
structural genomics; HET: MSE; 2.10A {Helicobacter
pylori}
Length = 229
Score = 28.2 bits (63), Expect = 2.8
Identities = 7/63 (11%), Positives = 21/63 (33%), Gaps = 4/63 (6%)
Query: 167 NQSHKSITTLQGEDIVFLATDINLPGAVDWVMMQSCFG-HHFMLVLEKQEKFD--GHQHF 223
+Q TL + + +++ + ++ S + L+ K +
Sbjct: 12 SQRIAPYKTLILNEFCYYPLELDPTP-FNALIFTSKNAVFSLLETLKNSPKLKMLQNIPA 70
Query: 224 FAI 226
+A+
Sbjct: 71 YAL 73
>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 = 26.1 bits (58), Expect = 3.0
Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 7/47 (14%)
Query: 58 ECPVCFDYVLPPIIQCQS---GHLVCSNC-RPKL---SCCPTCRGPL 97
CP+C + + + GHL+ C L CP C GP
Sbjct: 7 GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53
>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 = 28.0 bits (61), Expect = 3.4
Identities = 10/63 (15%), Positives = 18/63 (28%), Gaps = 11/63 (17%)
Query: 57 FECPVCFDYVLPPIIQCQSGHLVCSNC-------RPKLSC-CPTCRGPLGN---IRNLAM 105
CP+ P+I + H+ + C C + +R+ M
Sbjct: 182 LTCPITCKPYEAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAACSQVVSMRDFVRDPIM 241
Query: 106 EKV 108
E
Sbjct: 242 ELR 244
>3m0c_C LDL receptor, low-density lipoprotein receptor; protein complex,
beta propeller, cholesterol clearance, PCSK
autocatalytic cleavage; 7.01A {Homo sapiens}
Length = 791
Score = 28.3 bits (62), Expect = 3.8
Identities = 17/142 (11%), Positives = 34/142 (23%)
Query: 62 CFDYVLPPIIQCQSGHLVCSNCRPKLSCCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMN 121
C D+ PI +C + + +N C G + Q
Sbjct: 299 CRDWSDEPIKECGTNECLDNNGGCSHVCNDLKIGYECLCPDGFQLVAQRRCEDIDECQDP 358
Query: 122 GCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHLNQSHKSITTLQGEDI 181
L + ++ CE L P A G + ++ K
Sbjct: 359 DTCSQLCVNLEGGYKCQCEEGFQLDPHTKACKAVGSIAYLFFTNRHEVRKMTLDRSEYTS 418
Query: 182 VFLATDINLPGAVDWVMMQSCF 203
+ + + + +
Sbjct: 419 LIPNLRNVVALDTEVASNRIYW 440
>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 = 26.4 bits (58), Expect = 4.6
Identities = 7/34 (20%), Positives = 12/34 (35%), Gaps = 6/34 (17%)
Query: 54 ASLFECPVCFDYV----LPPIIQCQSGHLVCSNC 83
+ C +C + I QC + C+ C
Sbjct: 3 SGSSGCKLCLGEYPVEQMTTIAQC--QCIFCTLC 34
>4fhd_A Spore photoproduct lyase; partial TIM-barrel, DNA repair, damaged
DNA; HET: EEM 0TT; 2.00A {Geobacillus
thermodenitrificans} PDB: 4fhc_A* 4fhg_A* 4fhe_A*
4fhf_A*
Length = 368
Score = 27.8 bits (61), Expect = 4.6
Identities = 5/26 (19%), Positives = 7/26 (26%), Gaps = 3/26 (11%)
Query: 58 ECPVCFDYVLPPIIQCQSGHLVCSNC 83
+Y +P C C C
Sbjct: 102 SSKPSAEYAIPLATGCMGH---CHYC 124
>2yre_A F-box only protein 30; zinc binding, E3 ubiquitin ligase, SCF,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 100
Score = 26.2 bits (57), Expect = 6.0
Identities = 11/46 (23%), Positives = 15/46 (32%)
Query: 121 NGCGISLLHTEKPEHEDTCEHRPYLCPCPGASCKWGGALDQVMAHL 166
CG + EH C C C + A ++V HL
Sbjct: 42 LVCGAVFHSCKADEHRLLCPFERVPCLNSDFGCPFTMARNKVAEHL 87
>1ntl_A CRRY-IG; immunology, complement, glycoprotein, SCR, CCP, immune
system; NMR {Mus musculus}
Length = 551
Score = 27.7 bits (61), Expect = 6.3
Identities = 16/146 (10%), Positives = 26/146 (17%), Gaps = 13/146 (8%)
Query: 11 DSNPNHTVGIVGSKKHGPGNGLNNISPSSSSNSSNSAGTSTDLASLFECPVCFDYVLPPI 70
+ V + +G T EC +
Sbjct: 248 EPELPSCFKGVICRLPQEMSGFQKGLGMKKEYYYGENVT-------LECEDGYTLEGSSQ 300
Query: 71 IQCQS-GHLVCSNCRPKLSCCPTCRGPLGNIRNLAMEKVAGTMWFPCRYQMNGCGISLLH 129
QCQS G + + + F + +
Sbjct: 301 SQCQSDGSWNPLLAKCVSRLADPEVPRDCGCKPCICTVPEVSSVFIFPPKPKD-----VL 355
Query: 130 TEKPEHEDTCEHRPYLCPCPGASCKW 155
T + TC P W
Sbjct: 356 TITLTPKVTCVVVDISKDDPEVQFSW 381
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.136 0.438
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: 4,547,226
Number of extensions: 259843
Number of successful extensions: 736
Number of sequences better than 10.0: 1
Number of HSP's gapped: 670
Number of HSP's successfully gapped: 118
Length of query: 300
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 207
Effective length of database: 4,105,140
Effective search space: 849763980
Effective search space used: 849763980
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: 57 (26.3 bits)