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= 046932
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/50 (48%), Positives = 31/50 (62%)
Query: 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRAT 149
+DG+ C VC E+E EAR + C H FH C+ WL ++TCPLCR T
Sbjct: 3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLT 52
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 49.7 bits (117), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 32/48 (66%), Gaps = 1/48 (2%)
Query: 102 GIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRAT 149
G+ C VC+E+ R + C H+FHDSCI+ WL+ +++CP+CR +
Sbjct: 15 GLECPVCKEDYALGESVRQ-LPCNHLFHDSCIVPWLEQHDSCPVCRKS 61
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/49 (44%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKP 152
+C VC + E R ++ C H FH C+ KWLK N TCP+CRA P
Sbjct: 25 LCVVCMCDFESRQLLR-VLPCNHEFHAKCVDKWLKANRTCPICRADSGP 72
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 104 VCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLC 146
+C VC E+ + E I C H FH C++KWL++ CPLC
Sbjct: 17 LCAVCLEDFKPRDEL-GICPCKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148
C +C +E+ + R + CMH+FH C+ +WL N CP+CR
Sbjct: 17 CTICLSILEEGEDVRR-LPCMHLFHQVCVDQWLITNKKCPICRV 59
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 40.0 bits (92), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 108 CQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCR 147
CQ E ++E EC H FH+ C+ W+K NN CPLC+
Sbjct: 32 CQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPK 153
C +C E K A + C H FH C+ WL+ + TCP+CR P
Sbjct: 43 CPICCSEYVKGDVATE-LPCHHYFHKPCVSIWLQKSGTCPVCRCMFPPP 90
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148
C +C E+ A + C+H F CI +W++ N TCPLC+
Sbjct: 8 CPICLEDPSNYSMA---LPCLHAFCYVCITRWIRQNPTCPLCKV 48
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 117 EARAIMECMHMFHDSCILKWLKINNTCPLC 146
+A I+EC+H F +CI+++L+ + CP+C
Sbjct: 27 DATTIIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCR 147
I+C +C+ + +A I EC+H F SCI++ +N CP C
Sbjct: 16 ILCSICKGYLI---DATTITECLHTFCKSCIVRHFYYSNRCPKCN 57
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 117 EARAIMECMHMFHDSCILKWLKINNTCPLC 146
+A I+EC+H F +CI+++L+ + CP+C
Sbjct: 27 DATTIIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 22/30 (73%)
Query: 117 EARAIMECMHMFHDSCILKWLKINNTCPLC 146
+A I+EC+H F +CI+++L+ + CP+C
Sbjct: 23 DATTIIECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 5/68 (7%)
Query: 92 TTALSVDGEDGIVCGVCQEEM-EKEHEARAIM--ECMHMFHDSCILKWLKINNTCPLCRA 148
TT L G + C +C + E R I+ EC H+F C+ LK NTCP CR
Sbjct: 2 TTGLRPSGT--VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59
Query: 149 TCKPKKLH 156
K+ H
Sbjct: 60 KINHKRYH 67
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 99 GEDGIVCGVCQEEM-EKEHEARAIM--ECMHMFHDSCILKWLKINNTCPLCRATCKPKKL 155
G + C +C + E R I+ EC H+F C+ LK NTCP CR K+
Sbjct: 4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 63
Query: 156 H 156
H
Sbjct: 64 H 64
Score = 34.7 bits (78), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 3/61 (4%)
Query: 99 GEDGIVCGVCQEEM-EKEHEARAIM--ECMHMFHDSCILKWLKINNTCPLCRATCKPKKL 155
G + C +C + E R I+ EC H+F C+ LK NTCP CR K+
Sbjct: 69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRY 128
Query: 156 H 156
H
Sbjct: 129 H 129
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.1 bits (74), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 103 IVCGVCQEEM-EKEHEARAIM--ECMHMFHDSCILKWLKINNTCPLCRATCKPKKLH 156
+ C +C + E R I+ EC H+F C+ LK NTCP CR K+ H
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYH 60
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 32.7 bits (73), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPK 153
E+ + C +C E EA + C H F CI +W+K CP+CR K K
Sbjct: 51 ENELQCIICSEYF---IEA-VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 100 EDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRATCKPK 153
E+ + C +C E EA + C H F CI +W+K CP+CR K K
Sbjct: 51 ENELQCIICSEYF---IEA-VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>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 = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLCRA 148
C +C E++ ++ C H+ H +C + LK CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 115 EHEARAIMECMHMFHDSCILKWLKINNTCPLCR 147
+ A I+ C H F CI KW + CP+CR
Sbjct: 23 DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 122 MECMHMFHDSCILKWLKINNTCPLCRATCKPK 153
+ C H F CI +W+K CP+CR K K
Sbjct: 80 LNCAHSFCSYCINEWMKRKIECPICRKDIKSK 111
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 124 CMHMFHDSCILKWLKINNTCPL 145
C H FH CI +WLK CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 18/43 (41%)
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPL 145
I C Q E A C H FH CI +WLK CPL
Sbjct: 52 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.0 bits (71), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 124 CMHMFHDSCILKWLKINNTCPL 145
C H FH CI +WLK CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 18/43 (41%)
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPL 145
I C Q E A C H FH CI +WLK CPL
Sbjct: 54 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 96
>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 = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 18/43 (41%)
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPL 145
I C Q E A C H FH CI +WLK CPL
Sbjct: 52 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 31/69 (44%), Gaps = 9/69 (13%)
Query: 92 TTALSVDGE----DGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKI-NNTCPLC 146
T L+VD I C +C+ + E C H+F CIL+ LK+ + CP C
Sbjct: 9 TKLLAVDFPAHFVKSISCQICEHILADPVET----SCKHLFCRICILRCLKVMGSYCPSC 64
Query: 147 RATCKPKKL 155
R C P L
Sbjct: 65 RYPCFPTDL 73
>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 = 32.0 bits (71), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 124 CMHMFHDSCILKWLKINNTCPL 145
C H FH CI +WLK CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 31.6 bits (70), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 124 CMHMFHDSCILKWLKINNTCPL 145
C H FH CI +WLK CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 31.2 bits (69), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNTCPLC 146
C +C E++ ++ C H+ H +C + LK CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.2 bits (69), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 103 IVCGVCQEEM-EKEHEARAIM--ECMHMFHDSCILKWLKINNTCPLCR 147
+ C +C + E R I+ EC H+F C+ LK NTCP CR
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>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 = 30.8 bits (68), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 7/71 (9%)
Query: 79 KLLEPTIDPALACTTALSVDGEDGIVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLK 138
L E P LA + +D + CG+C E + A I +C H + CI K+L
Sbjct: 3 SLAESRWPPGLAVMKTI----DDLLRCGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLS 55
Query: 139 INNTCPLCRAT 149
CP C T
Sbjct: 56 YKTQCPTCCVT 66
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 29.3 bits (64), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 48/106 (45%), Gaps = 13/106 (12%)
Query: 43 LETMTKNLAMSRAQTQQKDFKTALMEVELQVSIHLAKLLEPTIDPALACTTALSVDGEDG 102
L +M++ + + Q K ++ +L E++ + LE + P S+ E
Sbjct: 3 LGSMSQAVQTNGTQPLSKTWELSLYELQRTPQEAITDGLEIVVSPR-------SLHSE-- 53
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNT-CPLCR 147
++C +C + ++ + EC+H F CI+ L+ N CP CR
Sbjct: 54 LMCPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCR 96
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 7/45 (15%)
Query: 105 CGVCQEEMEKEHEARAIMECMHMFHDSCILKW---LKINNTCPLC 146
C VC E +++ I+EC H F +CI +W L+ + CP+C
Sbjct: 18 CSVCLEYLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNT-CPLCR 147
++C +C + ++ + EC+H F CI+ L+ N CP CR
Sbjct: 35 LMCPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCR 77
>pdb|1VYX|A Chain A, Solution Structure Of The Kshv K3 N-Terminal Domain
Length = 60
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 100 EDGIVCGVCQEEMEKEH-EARAIMECMHMFHDSCILKWLKI--NNTCPLC 146
ED VC +C EE+ E A + H SC+ WL I N C +C
Sbjct: 4 EDVPVCWICNEELGNERFRACGCTGELENVHRSCLSTWLTISRNTACQIC 53
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 27.3 bits (59), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 4/46 (8%)
Query: 103 IVCGVCQEEMEKEHEARAIMECMHMFHDSCILKWLKINNT-CPLCR 147
++C +C + ++ + EC+H F CI+ L+ N CP CR
Sbjct: 55 LMCPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCR 97
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
Length = 3245
Score = 26.9 bits (58), Expect = 5.6, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 26 HCSAFDCGDQEQLEFVRLETMTKNLAMSRAQTQQKDFKTALMEVEL----QVSIHLAKLL 81
C A+ C D EF RLE + + QT Q K EVEL +S+H +
Sbjct: 655 QCGAWGCFD----EFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGI 710
Query: 82 EPTIDPALACTTAL 95
T++P A + L
Sbjct: 711 FVTMNPGYAGRSNL 724
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 26.9 bits (58), Expect = 5.6, Method: Composition-based stats.
Identities = 23/74 (31%), Positives = 32/74 (43%), Gaps = 8/74 (10%)
Query: 26 HCSAFDCGDQEQLEFVRLETMTKNLAMSRAQTQQKDFKTALMEVEL----QVSIHLAKLL 81
C A+ C D EF RLE + + QT Q K EVEL +S+H +
Sbjct: 655 QCGAWGCFD----EFNRLEERILSAVSQQIQTIQVALKENSKEVELLGGKNISLHQDMGI 710
Query: 82 EPTIDPALACTTAL 95
T++P A + L
Sbjct: 711 FVTMNPGYAGRSNL 724
>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
Cellular Modulator Of Immune Recognition Protein
Length = 80
Score = 26.6 bits (57), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 104 VCGVCQEEMEKEHEARAIMEC---MHMFHDSCILKWLKINNT--CPLCR 147
+C +C E + E C +H H +C+ +W+K ++T C LC+
Sbjct: 17 ICRICHCEGDDESPLITPCHCTGSLHFVHQACLQQWIKSSDTRCCELCK 65
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
0.322 0.132 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,318,828
Number of Sequences: 62578
Number of extensions: 142528
Number of successful extensions: 346
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 313
Number of HSP's gapped (non-prelim): 47
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)