RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12127
(263 letters)
>2a25_A Ubiquitin ligase SIAH1; protein-peptide complex, ligase; 2.20A
{Homo sapiens} PDB: 2an6_A 1k2f_A
Length = 193
Score = 58.3 bits (140), Expect = 1e-10
Identities = 24/104 (23%), Positives = 48/104 (46%), Gaps = 9/104 (8%)
Query: 78 KLELPCRNFRFGCKVYLPKAKRDKHEDKCKFRQLKC--PMHACPWTNSVLHLSEHLNQVH 135
+ PC+ GC++ LP ++ HE+ C+FR C P +C W S+ + HL H
Sbjct: 4 SVLFPCKYASSGCEITLPHTEKADHEELCEFRPYSCPCPGASCKWQGSLDAVMPHLMHQH 63
Query: 136 H-LHLLKGNGVNIEISNFKTKVSESETKVHKYVILMNCYSQYFI 178
+ L+G + ++ + +V++ +C+ +F+
Sbjct: 64 KSITTLQGEDIVFLATDI------NLPGAVDWVMMQSCFGFHFM 101
>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 = 46.7 bits (111), Expect = 4e-07
Identities = 21/99 (21%), Positives = 39/99 (39%), Gaps = 10/99 (10%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CPFCRITIDYS-WQRNVALERI 75
EC +CL L + + CG+ C +C + ++ CP + + + +R
Sbjct: 20 ECPICLMALREAVQT--PCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKRE 77
Query: 76 FTKLELPCRNFRFGCKVYLPKAKRDKHEDKCKFRQLKCP 114
L + C N GC + + H+ C+F L+
Sbjct: 78 ILSLMVKCPNE--GCLHKMELRHLEDHQAHCEFALLEHH 114
>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 = 41.8 bits (97), Expect = 2e-04
Identities = 35/260 (13%), Positives = 73/260 (28%), Gaps = 67/260 (25%)
Query: 14 KELIASISECGVCLEPLDRGITSCQTC-GN-LVCTSCAARLLKCPFCRITIDYSWQRNVA 71
K L+ +C P + N + A + T D W ++V
Sbjct: 304 KSLLLKYLDCRPQDLPR-------EVLTTNPRRLSIIAESIRDGL---ATWDN-W-KHVN 351
Query: 72 LERIFTKLELPCRNFRFGCKVYLPKAKRDKHEDKCKFRQ-LKCPMHACP--WTNSVLHLS 128
+++ T +E P R + F P W + +
Sbjct: 352 CDKLTTIIESSLNVLE-------PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 129 EH-LNQVHHLHLLKGNGVNIEIS------NFKTKVSESETKVHKYVILMNCYSQYFICKL 181
+N++H L++ IS K K+ E+E +H+ +++ Y+
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL-ENEYALHR--SIVDHYN--IPKTF 459
Query: 182 CLYKKVLTMSFVQISNSSPFHFGVFVNIASNFKSMKGIVPIHYACPELHISCDALVTPWK 241
+ + H G + H+ + +
Sbjct: 460 DSDDLIPP----YLDQYFYSHIG-------------------H-----HLKN---IEHPE 488
Query: 242 SQDNCVKIYLNIRYMNAPIR 261
++L+ R++ IR
Sbjct: 489 RMTLFRMVFLDFRFLEQKIR 508
>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 = 38.2 bits (88), Expect = 6e-04
Identities = 25/111 (22%), Positives = 33/111 (29%), Gaps = 20/111 (18%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CPFCRITIDYS----------W 66
C C L R + CG+ C+ C A +L C C Y
Sbjct: 33 LCSACRNVLRRPFQA--QCGHRYCSFCLASILSSGPQNCAACVHEGIYEEGISILESSSA 90
Query: 67 QRNVALERIFTKLELPCRNFRFGCKVYLP-KAKRDKHEDKCKFRQLKCPMH 116
+ A R L C + GC K HE +C L+ H
Sbjct: 91 FPDNAARREVESLPAVCPSD--GCTWKGTLKEYESCHEGRCPLMLLEHHHH 139
>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 = 37.4 bits (86), Expect = 0.002
Identities = 26/126 (20%), Positives = 48/126 (38%), Gaps = 12/126 (9%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLL-----KCPFCRITIDYS-WQRNVALERI 75
EC +CL L + + CG+ C +C + + KCP + + + +R
Sbjct: 20 ECPICLMALREAVQT--PCGHRFCKACIIKSIRDAGHKCPVDNEILLENQLFPDNFAKRE 77
Query: 76 FTKLELPCRNFRFGCKVYLPKAKRDKHEDKCKFRQLKCPMHACPWTNSVLHLSEHLNQVH 135
L + C N GC + + H+ C+F + CP C H++ H+ +
Sbjct: 78 ILSLMVKCPNE--GCLHKMELRHLEDHQAHCEFALMDCP--QCQRPFQKFHINIHILKDC 133
Query: 136 HLHLLK 141
+
Sbjct: 134 PRRQVS 139
>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 = 37.3 bits (86), Expect = 0.005
Identities = 34/226 (15%), Positives = 69/226 (30%), Gaps = 80/226 (35%)
Query: 10 CANCKELIASISECGVCLEPLDRGITSCQTCGNLVCTSCAARLLKCPFCRITIDYSWQ-- 67
K L + E L +G T + T+ A I SW+
Sbjct: 250 VVTAKLLGFTPGE----LRSYLKGAT---GHSQGLVTAVA----------IAETDSWESF 292
Query: 68 -RNV--ALERIF-----TKLELPCRNFRFGCKVYLPKAKRDKHEDKCKFRQLKCPMHACP 119
+V A+ +F P + P D E+ + PM +
Sbjct: 293 FVSVRKAITVLFFIGVRCYEAYPNTSLP-------PSILEDSLENNEG---VPSPMLSI- 341
Query: 120 WTN-SVLHLSEHLNQV--H-----HLHL----------LKGN-----GVNIEISNFKTKV 156
+N + + +++N+ H + + + G G+N+ + K
Sbjct: 342 -SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPS 400
Query: 157 SESETKVHKYVILMNCYSQYFICKLCLYKKVLTMSFVQISNSSPFH 202
++++ +S+ K + F+ ++ SPFH
Sbjct: 401 GLDQSRIP--------FSER--------KLKFSNRFLPVA--SPFH 428
>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 = 34.1 bits (78), Expect = 0.005
Identities = 14/52 (26%), Positives = 23/52 (44%), Gaps = 7/52 (13%)
Query: 19 SISECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK------CPFCRITIDY 64
++ C +C L +G SC+TCG + C A+ + CP C +
Sbjct: 14 AVKICNICHSLLIQG-QSCETCGIRMHLPCVAKYFQSNAEPRCPHCNDYWPH 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 = 32.4 bits (74), Expect = 0.030
Identities = 13/55 (23%), Positives = 24/55 (43%), Gaps = 9/55 (16%)
Query: 14 KELIASISECGVCLEPLDRGITSCQT--CGNLVCTSCAARL-------LKCPFCR 59
+ + + EC +C+E + CG+ +C C +L ++CPFC
Sbjct: 9 LDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63
>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 = 33.8 bits (75), Expect = 0.053
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 2/64 (3%)
Query: 2 HCKKEPECCANCKELIASISECGVCLEPLDRGITSC-QTCGNLV-CTSCAARLLKCPFCR 59
+ E + +E + + E C +D+ ++ CG+LV C CA L KCP CR
Sbjct: 274 YIPTEDVSGLSLEEQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSLRKCPICR 333
Query: 60 ITID 63
I
Sbjct: 334 GIIK 337
>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 = 33.2 bits (75), Expect = 0.082
Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 7/67 (10%)
Query: 2 HCKKEPECCANCKELIASISECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CP 56
H K E E+ ++ C +C E + CG+L+CTSC + CP
Sbjct: 314 HIKVTQEQYELYCEMGSTFQLCKICAENDKD--VKIEPCGHLMCTSCLTSWQESEGQGCP 371
Query: 57 FCRITID 63
FCR I
Sbjct: 372 FCRCEIK 378
>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 = 31.5 bits (71), Expect = 0.092
Identities = 23/87 (26%), Positives = 38/87 (43%), Gaps = 12/87 (13%)
Query: 3 CKKEPECCANCKELIASISE---CGVCLEPLDRGITSCQTCGNLVCTSC-----AARLLK 54
K P + + ++ + E C C E + R IT+ C + VC C A++
Sbjct: 32 LKDRPASGSPFQLFLSKVEETFQCICCQELVFRPITT--VCQHNVCKDCLDRSFRAQVFS 89
Query: 55 CPFCR--ITIDYSWQRNVALERIFTKL 79
CP CR + Y+ Q N L+ + +L
Sbjct: 90 CPACRYDLGRSYAMQVNQPLQTVLNQL 116
>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 = 30.1 bits (68), Expect = 0.13
Identities = 10/44 (22%), Positives = 14/44 (31%), Gaps = 3/44 (6%)
Query: 21 SECGVCLEPLDRGITSCQTCGNLV-CTSCAARLLKCPFCRITID 63
+C VC C + C C +CP CR +
Sbjct: 16 KDCVVCQN--GTVNWVLLPCRHTCLCDGCVKYFQQCPMCRQFVQ 57
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3
ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Length = 238
Score = 32.0 bits (72), Expect = 0.14
Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 7/47 (14%)
Query: 19 SISECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK------CPFCR 59
++ C +C L +G + C+TCG + C A+ + CP C
Sbjct: 179 AVKICNICHSLLIQGQS-CETCGIRMHLPCVAKYFQSNAEPRCPHCN 224
>2ecg_A Baculoviral IAP repeat-containing protein 4; BIRC4, ring domian,
zinc-binding domain, structural genomics, NPPSFA; NMR
{Homo sapiens}
Length = 75
Score = 29.7 bits (67), Expect = 0.18
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 5/44 (11%)
Query: 22 ECGVCLEPLDRGITSC-QTCGNLV-CTSCAARLLKCPFCRITID 63
C +C+ DR I CG+LV C CA + KCP C I
Sbjct: 27 LCKICM---DRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVIT 67
>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 = 30.7 bits (69), Expect = 0.20
Identities = 21/96 (21%), Positives = 31/96 (32%), Gaps = 11/96 (11%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CPFCRITIDYS--WQRNVALER 74
C +C L + + C +L C C R LK CP CR + +
Sbjct: 25 SCQICEHILADPVETS--CKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLN 82
Query: 75 IFTKLELPCRNFRFGCKVYLPKAKRDKHEDKCKFRQ 110
I L + C C + K + H K +
Sbjct: 83 ILNSLMVKCPA--QDCNEEVSLEKYNHHVSSHKESK 116
>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 = 29.7 bits (67), Expect = 0.22
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 3/42 (7%)
Query: 23 CGVCLEPLDRGITSCQTCGNLV-CTSCAARLLKCPFCRITID 63
C VC E + ++ CG+ V C SCAA+L CP CR ++
Sbjct: 21 CMVCCE--EEINSTFCPCGHTVCCESCAAQLQSCPVCRSRVE 60
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 28.6 bits (64), Expect = 0.39
Identities = 14/47 (29%), Positives = 19/47 (40%), Gaps = 7/47 (14%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CPFCRITID 63
+C C L + CG+ C SC A LL C C+ +I
Sbjct: 17 KCEKCHLVLCSPKQTE--CGHRFCESCMAALLSSSSPKCTACQESIV 61
>4epo_C E3 ubiquitin-protein ligase RNF8; coiled-coil, E3 ubiquitin ligase,
protein binding complex; 4.80A {Homo sapiens}
Length = 149
Score = 30.0 bits (67), Expect = 0.47
Identities = 17/77 (22%), Positives = 28/77 (36%), Gaps = 9/77 (11%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLLK----CPFCRITI---DYSWQRNVALER 74
+C +C E +T C + C+ C +K CP CR I YS + + +
Sbjct: 66 QCIICSEYFIEAVTL--NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINK 123
Query: 75 IFTKLELPCRNFRFGCK 91
+ L + R
Sbjct: 124 MVNNLSSEVKERRIVLI 140
>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 = 29.1 bits (65), Expect = 0.47
Identities = 20/53 (37%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 15 ELIASISECGVCLEPLDRGITSCQTCGNLVCTSCAARLL-----KCPFCRITI 62
E IA + C +C+E L R C C L C SC R L +CP CR +
Sbjct: 17 ESIAEVFRCFICMEKL-RDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
>1e4u_A Transcriptional repressor NOT4; gene regulation, transcriptional
control; NMR {Homo sapiens} SCOP: g.44.1.1 PDB: 1ur6_B
Length = 78
Score = 28.5 bits (63), Expect = 0.54
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 9/51 (17%)
Query: 21 SECGVCLEPLD---RGITSCQTCGNLVCTSCAARLL-----KCPFCRITID 63
EC +C+EPL+ C TCG +C C R+ CP CR
Sbjct: 12 VECPLCMEPLEIDDINFFPC-TCGYQICRFCWHRIRTDENGLCPACRKPYP 61
>2djb_A Polycomb group ring finger protein 6; PCGF6, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 72
Score = 28.2 bits (63), Expect = 0.69
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 5/45 (11%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARLL----KCPFCRITI 62
C +C L T + C + C SC R +CP C I +
Sbjct: 17 LCSICKGYLIDATTITE-CLHTFCKSCIVRHFYYSNRCPKCNIVV 60
>2zet_C Melanophilin; complex, GTP-binding protein, GTPase, G-protein, RAB,
RAB27B, effector, SLP homology domain, acetylation,
lipoprotein, membrane; HET: GTP; 3.00A {Mus musculus}
Length = 153
Score = 28.8 bits (63), Expect = 1.1
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 8/54 (14%)
Query: 19 SISECGVCLEPLDRGITS---CQTCGNLVCTSCAARLLK-----CPFCRITIDY 64
+ + C CL+P + S C C VC SC+ + C C +
Sbjct: 67 NETHCARCLQPYRLLLNSRRQCLECSLFVCKSCSHAHPEEQGWLCDPCHLARVV 120
>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 = 28.3 bits (63), Expect = 1.2
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 23 CGVCLEPLDRGITSCQTCGNLVCTSCAARLLK--CPFCRITIDY-SWQRNVALERI 75
C C L + C ++ C++C + + CP C + N L+ +
Sbjct: 25 CSRCTNILREPVC-LGGCEHIFCSNCVSDCIGTGCPVCYTPAWIQDLKINRQLDSM 79
>2d8t_A Dactylidin, ring finger protein 146; RNF146, ring domain,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 71
Score = 27.1 bits (60), Expect = 1.3
Identities = 10/45 (22%), Positives = 19/45 (42%), Gaps = 6/45 (13%)
Query: 19 SISECGVCLEPLDRGITSCQTCGNLVCTSCAARLL----KCPFCR 59
++ EC +CL+ ++ C ++ C C +C CR
Sbjct: 14 TVPECAICLQTCVHPVSL--PCKHVFCYLCVKGASWLGKRCALCR 56
>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 = 27.1 bits (60), Expect = 1.4
Identities = 16/52 (30%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 17 IASISECGVCLE-PLDRGITSCQTCGNLVCTSCAARLLK----CPFCRITID 63
+ +I C +C P + I +T + C +CA +L K CP CR I
Sbjct: 5 LNAIEPCVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQ 56
>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 = 28.0 bits (62), Expect = 1.7
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 9/56 (16%)
Query: 14 KELIASISE--CGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CPFCRITI 62
K+ I S+SE CG+C+E L +T C + +C C ++ CPFCR +
Sbjct: 7 KDAIPSLSECQCGICMEILVEPVTLP--CNHTLCKPCFQSTVEKASLCCPFCRRRV 60
>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 = 26.7 bits (59), Expect = 1.9
Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 5/47 (10%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLV-CTSCAARLLK----CPFCRITID 63
C +C + G G+LV C CA RL K CP C+ I
Sbjct: 9 PCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQ 55
>2y43_A E3 ubiquitin-protein ligase RAD18; DNA repair, metal-binding,
translesion synthesis, UB conjugation pathway; 1.80A
{Homo sapiens}
Length = 99
Score = 27.4 bits (61), Expect = 2.0
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 5/44 (11%)
Query: 23 CGVCLEPLDRGITSCQTCGNLVCTSCAARLL----KCPFCRITI 62
CG+C E C + C+ C + L +CP C +T+
Sbjct: 25 CGICFEYF-NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTV 67
>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 = 26.3 bits (58), Expect = 2.7
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 9/51 (17%)
Query: 22 ECGVCLEPLDRGITSCQT-----CGNLVCTSCAARLLK----CPFCRITID 63
C +C++ + + + CG++ C+ C LK CP CR I+
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 62
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 28.3 bits (63), Expect = 2.9
Identities = 10/42 (23%), Positives = 12/42 (28%), Gaps = 5/42 (11%)
Query: 19 SISECGVCLEPLDRGIT----SCQTCGNLVCTSCAARLLKCP 56
+ C C L RG C C C R+ C
Sbjct: 356 ETTSCKACQMLL-RGTFYQGYRCYRCRAPAHKECLGRVPPCG 396
>2ea6_A Ring finger protein 4; RNF4, RES4-26, ring domain, zinc- binding
domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 69
Score = 26.0 bits (57), Expect = 2.9
Identities = 13/51 (25%), Positives = 23/51 (45%), Gaps = 9/51 (17%)
Query: 22 ECGVCLEPLDRGITSCQT-----CGNLVCTSCAARLLK----CPFCRITID 63
C +C++ + + + CG++ C+ C LK CP CR I+
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67
>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 = 27.2 bits (59), Expect = 3.0
Identities = 10/54 (18%), Positives = 18/54 (33%), Gaps = 3/54 (5%)
Query: 1 LHCKKEPECCANCKELIASISECGVCLEPLDRGITS---CQTCGNLVCTSCAAR 51
+ + ++ C +C E L ++ C+ C VCT C
Sbjct: 36 IGRLVDRLETMRKNVAGDGVNRCILCGEQLGMLGSASVVCEDCKKNVCTKCGVE 89
>1hyo_A Fumarylacetoacetate hydrolase; beta-sandwich roll; HET: HBU; 1.30A
{Mus musculus} SCOP: b.34.8.1 d.177.1.1 PDB: 1qcn_A
2hzy_A* 1qco_A 1qqj_A
Length = 421
Score = 28.2 bits (62), Expect = 3.4
Identities = 8/23 (34%), Positives = 13/23 (56%), Gaps = 5/23 (21%)
Query: 189 TMSFVQISNSSPFH-----FGVF 206
+MSF+ ++ S F +GVF
Sbjct: 2 SMSFIPVAEDSDFPIQNLPYGVF 24
>1bor_A Transcription factor PML; proto-oncogene, nuclear bodies (PODS),
leukemia, transcription regulation; NMR {Homo sapiens}
SCOP: g.44.1.1
Length = 56
Score = 25.8 bits (57), Expect = 3.5
Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 3/39 (7%)
Query: 22 ECGVCLEPLDRGITSCQTCGNLVCTSCAARL-LKCPFCR 59
C C C + +C+ C ++CP C+
Sbjct: 8 RCQQCQAEAKCPKLL--PCLHTLCSGCLEASGMQCPICQ 44
>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 = 26.5 bits (58), Expect = 7.4
Identities = 14/93 (15%), Positives = 34/93 (36%), Gaps = 8/93 (8%)
Query: 23 CGVCLEPLDRGITSCQTCGNLVCTSCAARLLK-----CPFCRITIDYSW--QRNVALERI 75
C +CL+ L + + + C + C C L+ CP CR + + + + +
Sbjct: 57 CPICLDML-KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDAL 115
Query: 76 FTKLELPCRNFRFGCKVYLPKAKRDKHEDKCKF 108
+K+ + + L + + ++
Sbjct: 116 ISKIYPSRDEYEAHQERVLARINKHNNQQALSH 148
>2xeu_A Ring finger protein 4; transcription, zinc-finger, metal-binding;
HET: SUC; 1.50A {Homo sapiens}
Length = 64
Score = 24.7 bits (54), Expect = 8.8
Identities = 13/55 (23%), Positives = 25/55 (45%), Gaps = 9/55 (16%)
Query: 18 ASISECGVCLEPLDRGITSCQT-----CGNLVCTSCAARLLK----CPFCRITID 63
++ C +C++ + + + CG++ C+ C LK CP CR I+
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 55
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
0.327 0.138 0.463
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,913,400
Number of extensions: 218923
Number of successful extensions: 848
Number of sequences better than 10.0: 1
Number of HSP's gapped: 799
Number of HSP's successfully gapped: 96
Length of query: 263
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 171
Effective length of database: 4,133,061
Effective search space: 706753431
Effective search space used: 706753431
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 56 (25.8 bits)