BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 034125
(103 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 5/63 (7%)
Query: 7 GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
G+ G H EC +C E +Y+ ++ ++ C+H+FH CI PWLE+ +C
Sbjct: 1 GSSGSSGTEEHVGSGLECPVCKE-DYALGESVRQLPCNHLFHDSCIVPWLEQHD----SC 55
Query: 67 PVC 69
PVC
Sbjct: 56 PVC 58
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
D+ ECA+CL + E A +C H FHA+C+ W LG CP+C +
Sbjct: 3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMW----LGSHSTCPLCRLTV 53
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 34/77 (44%), Gaps = 7/77 (9%)
Query: 7 GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
G+ G + + CA+CLE ++ + C H FH C+ WLE R C
Sbjct: 1 GSSGSSGKVKELNLHELCAVCLE-DFKPRDELGICPCKHAFHRKCLIKWLEVRK----VC 55
Query: 67 PVCPFQMPLPSFEELSS 83
P+C MP+ +LS
Sbjct: 56 PLC--NMPVLQLAQLSG 70
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 15 SNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
+NH E+ C +C+ ++ + + C+H FHA C+ WL+ CP+C
Sbjct: 17 NNHQSEQTLCVVCM-CDFESRQLLRVLPCNHEFHAKCVDKWLKANR----TCPIC 66
>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3
Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4710b
Length = 91
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLP 76
+E C IC EY + C H FH C++ WL+ KS CPVC P P
Sbjct: 37 VGQEMCCPICCS-EYVKGDVATELPCHHYFHKPCVSIWLQ----KSGTCPVCRCMFPPP 90
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 9/67 (13%)
Query: 7 GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
G+ G R +E EC IC+ D A + + C+H F CI W + C
Sbjct: 1 GSSGSSGRVKQLTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRN----C 51
Query: 67 PVCPFQM 73
P+C QM
Sbjct: 52 PICRLQM 58
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 7 GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
G+ G + EA C++CLE Y E +I +C H F CIT W E+ L + C
Sbjct: 1 GSSGSSGALENLQVEASCSVCLE--YLKEPVII--ECGHNFCKACITRWWED-LERDFPC 55
Query: 67 PVC 69
PVC
Sbjct: 56 PVC 58
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 15/79 (18%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
RS H+ E C ICL+ ++ M +C H F ADCI L R G CP C ++
Sbjct: 49 RSLHS--ELMCPICLDML---KNTMTTKECLHRFCADCIITAL--RSGNK-ECPTCRKKL 100
Query: 74 -------PLPSFEELSSKV 85
P P+F+ L SK+
Sbjct: 101 VSKRSLRPDPNFDALISKI 119
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 15/79 (18%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
RS H+ E C ICL+ ++ M +C H F ADCI L R G CP C ++
Sbjct: 29 RSLHS--ELMCPICLDML---KNTMTTKECLHRFCADCIITAL--RSGNK-ECPTCRKKL 80
Query: 74 -------PLPSFEELSSKV 85
P P+F+ L SK+
Sbjct: 81 VSKRSLRPDPNFDALISKI 99
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 38/79 (48%), Gaps = 15/79 (18%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
RS H+ E C ICL+ ++ M +C H F ADCI L R G CP C ++
Sbjct: 48 RSLHS--ELMCPICLDML---KNTMTTKECLHRFCADCIITAL--RSGNK-ECPTCRKKL 99
Query: 74 -------PLPSFEELSSKV 85
P P+F+ L SK+
Sbjct: 100 VSKRSLRPDPNFDALISKI 118
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 34/86 (39%), Gaps = 10/86 (11%)
Query: 10 GEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEE---RLGKSCAC 66
G S + EE C ICLE + + C H CIT +E +G +C
Sbjct: 1 GSSGSSGNVQEEVTCPICLELLTEP----LSLDCGHSLCRACITVSNKEAVTSMGGKSSC 56
Query: 67 PVCPFQMPLPSFEELSSKVKSNNWIK 92
PVC SFE L + N ++
Sbjct: 57 PVCGISY---SFEHLQANQHLANIVE 79
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 28/51 (54%), Gaps = 8/51 (15%)
Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
+ E +C IC EY E+ + + C+H F + CI W++ ++ CP+C
Sbjct: 62 ENELQCIIC--SEYFIEA--VTLNCAHSFCSYCINEWMKRKI----ECPIC 104
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF 78
+ E +C IC EY E+ + + C+H F + CI W++ ++ CP+C + ++
Sbjct: 51 ENELQCIIC--SEYFIEA--VTLNCAHSFCSYCINEWMKRKI----ECPICRKDIKSKTY 102
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 31/60 (51%), Gaps = 8/60 (13%)
Query: 19 DEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSF 78
+ E +C IC EY E+ + + C+H F + CI W++ ++ CP+C + ++
Sbjct: 51 ENELQCIIC--SEYFIEA--VTLNCAHSFCSYCINEWMKRKI----ECPICRKDIKSKTY 102
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 10/79 (12%)
Query: 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPS 77
D+ C IC E AMI QCSH + + CI +L + CP C + P
Sbjct: 19 IDDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKT----QCPTCCVTVTEPD 71
Query: 78 FEE---LSSKVKSNNWIKE 93
+ L VKS N+ +
Sbjct: 72 LKNNRILDELVKSLNFARN 90
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 7/69 (10%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM 73
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 55 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPLDN 107
Query: 74 PLPSFEELS 82
F++
Sbjct: 108 REWEFQKYG 116
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 7/57 (12%)
Query: 23 ECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPFQM--PLPS 77
+C ICL E R+ C H+FH C+ W L + CP+C + LPS
Sbjct: 16 KCTICLSILEEGEDVR-RLPCMHLFHQVCVDQW----LITNKKCPICRVDIEAQLPS 67
>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger
And Chy Zinc Finger Domain-Containing Protein 1 From
Mus Musculus
Length = 55
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 18 TDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
+ + C ICLE ++ + C H+ H C EE L + CP+C
Sbjct: 2 SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTC----YEEMLKEGYRCPLC 49
>pdb|4A0C|D Chain D, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|F Chain F, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0L|F Chain F, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp
Abasic Site Containing Dna-Duplex
pdb|4A0L|I Chain I, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp
Abasic Site Containing Dna-Duplex
Length = 98
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 36 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPL 86
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 21 EAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
+ C ICLE ++ + C H+ H C EE L + CP+C
Sbjct: 5 QQNCPICLEDIHTSRVVAHVLPCGHLLHRTC----YEEMLKEGYRCPLC 49
>pdb|3DQV|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|Y Chain Y, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 106
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 44 RNHIXDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPL 94
>pdb|3DPL|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation.
pdb|3RTR|B Chain B, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|D Chain D, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|F Chain F, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|H Chain H, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|4F52|B Chain B, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|D Chain D, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 106
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 44 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPL 94
>pdb|1U6G|B Chain B, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
pdb|2HYE|D Chain D, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 108
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 46 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPL 96
>pdb|1LDJ|B Chain B, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
pdb|1LDK|C Chain C, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 90
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 28 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPL 78
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 14 RSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVCPF 71
R++ D EC S+E + C+H FH CI+ WL+ R VCP
Sbjct: 38 RNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTR-------QVCPL 88
>pdb|1WRM|A Chain A, Crystal Structure Of Jsp-1
Length = 165
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 59 RLGKSCACPVCPFQMPLPSFEELSSKVKSNNWIKEDAYWETWMEE 103
R G+SCA P FQ L FE+ + W+KE+ Y E+ +++
Sbjct: 121 RAGRSCANPNVGFQRQLQEFEKHEVH-QYRQWLKEE-YGESPLQD 163
>pdb|3HTK|C Chain C, Crystal Structure Of Mms21 And Smc5 Complex
Length = 267
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 18/35 (51%)
Query: 35 ESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
E+ +I +C+H+F D I +L+ + C C
Sbjct: 192 EAPLISRKCNHVFDRDGIQNYLQGYTTRDCPQAAC 226
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 22 AECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
A C +C K+ D+ ++ +C+ FH C+ P L E CP C
Sbjct: 1 ARCKVC-RKKGEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPAC 47
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 23/57 (40%), Gaps = 5/57 (8%)
Query: 13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
Q N EE C ICL+ + + C H F CIT E G CP+C
Sbjct: 12 QFVNKLQEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFF-KCPLC 63
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 23/57 (40%), Gaps = 5/57 (8%)
Query: 13 QRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCACPVC 69
Q N EE C ICL+ + + C H F CIT E G CP+C
Sbjct: 12 QFVNKLQEEVICPICLDILQKP----VTIDCGHNFCLKCITQIGETSCGFF-KCPLC 63
>pdb|2RO1|A Chain A, Nmr Solution Structures Of Human Kap1 Phd
Finger-Bromodomain
Length = 189
Score = 25.4 bits (54), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 42 QCSHIFHADCITPWLEERLGKSCACPVC 69
QC FH DC P L++ G+ +C +C
Sbjct: 19 QCEFCFHLDCHLPALQDVPGEEWSCSLC 46
>pdb|1FP0|A Chain A, Solution Structure Of The Phd Domain From The Kap-1
Corepressor
Length = 88
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%), Gaps = 3/39 (7%)
Query: 42 QCSHIFHADCITPWLEERLGKSCACPVCPFQMPLPSFEE 80
QC FH DC P L++ G+ +C +C LP +E
Sbjct: 42 QCEFCFHLDCHLPALQDVPGEEWSCSLCHV---LPDLKE 77
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 25.0 bits (53), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/79 (21%), Positives = 29/79 (36%), Gaps = 1/79 (1%)
Query: 7 GACGEGQRSNHTDEEAECAICLEKEYSDESAMIRMQCSHIFHADCITPWLEERLGKSCAC 66
G+ G + E EC IC+E ++ + C H C+ L + C
Sbjct: 1 GSSGSSGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSI-NGVRC 59
Query: 67 PVCPFQMPLPSFEELSSKV 85
P C + S +L+ +
Sbjct: 60 PFCSKITRITSLTQLTDNL 78
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.130 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,296,340
Number of Sequences: 62578
Number of extensions: 111880
Number of successful extensions: 264
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 56
length of query: 103
length of database: 14,973,337
effective HSP length: 68
effective length of query: 35
effective length of database: 10,718,033
effective search space: 375131155
effective search space used: 375131155
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)