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= 047079
(296 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 = 71.2 bits (173), Expect = 6e-13, Method: Composition-based stats.
Identities = 28/46 (60%), Positives = 33/46 (71%)
Query: 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148
G+ECA+CLAE ED R L C H FH EC+D+WL SH TCP+CR
Sbjct: 5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 34/45 (75%), Gaps = 1/45 (2%)
Query: 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSD 150
C +C+ +FE +LR+L C H FH +C+D WL++++TCP+CR+D
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRAD 69
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 55.5 bits (132), Expect = 4e-08, Method: Composition-based stats.
Identities = 25/55 (45%), Positives = 36/55 (65%), Gaps = 3/55 (5%)
Query: 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD--LPQNS 157
+C ICL+ E+ +R L C H+FHQ C+D WL ++K CP+CR D++ LP S
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPSES 69
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 103 GLECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLPQNSLEKSP 162
GLEC +C ++ +R L C H+FH CI WLE H +CPVCR L QN+ P
Sbjct: 15 GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL-TGQNTATNPP 72
Query: 163 LL 164
L
Sbjct: 73 GL 74
>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 = 48.1 bits (113), Expect = 5e-06, Method: Composition-based stats.
Identities = 25/75 (33%), Positives = 37/75 (49%), Gaps = 3/75 (4%)
Query: 74 ANPGLHPSLIQAFPAFAYSTVKDFRRQKYGLECAICLAEFEDDNILRLLTVCYHVFHQEC 133
ANP I A P + +D + C IC +E+ ++ L C+H FH+ C
Sbjct: 13 ANPPASKESIDALPEILVT--EDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPC 69
Query: 134 IDLWLESHKTCPVCR 148
+ +WL+ TCPVCR
Sbjct: 70 VSIWLQKSGTCPVCR 84
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
CA+CL +F+ + L + C H FH++C+ WLE K CP+C
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 105 ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCR 148
EC IC+ D L+ C H F Q+CID W + H+ CP+CR
Sbjct: 17 ECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 40.4 bits (93), Expect = 0.001, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 26/45 (57%)
Query: 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSD 150
C C AE + ++ + + C H FH C+ LW++ + CP+C+ D
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQD 73
>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 = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLPQNSLEKSPL 163
L+C IC F + L C H F CI+ W++ CP+CR D+ K+
Sbjct: 65 LQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIK------SKTYS 114
Query: 164 LFRSNSMNNITGSNVSTLEDAISIFIKEDEEAR 196
L N +N + + S +++ + I+E + R
Sbjct: 115 LVLDNCINKMVNNLSSEVKERRIVLIRERKAKR 147
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLPQNSLEKSPL 163
L+C IC F + L C H F CI+ W++ CP+CR D+ K+
Sbjct: 54 LQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIK------SKTYS 103
Query: 164 LFRSNSMNNITGSNVSTLEDAISIFIKEDEEAR 196
L N +N + + S +++ + I+E + R
Sbjct: 104 LVLDNXINKMVNNLSSEVKERRIVLIRERKAKR 136
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 10/93 (10%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLPQNSLEKSPL 163
L+C IC F + L C H F CI+ W++ CP+CR D+ K+
Sbjct: 54 LQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIK------SKTYS 103
Query: 164 LFRSNSMNNITGSNVSTLEDAISIFIKEDEEAR 196
L N +N + + S +++ + I+E + R
Sbjct: 104 LVLDNCINKMVNNLSSEVKERRIVLIRERKAKR 136
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 34.3 bits (77), Expect = 0.093, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
L C +C F D + C H F + CI +LE+ K CP+C
Sbjct: 12 LMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 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 = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 104 LECAICL---AEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152
+ C IC+ +E + L + T C HVF +C+ L++ TCP CR ++
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 62
>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 = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146
+EC A + VC H FH CI WL++ + CP+
Sbjct: 44 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 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 = 33.5 bits (75), Expect = 0.13, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146
+EC A + VC H FH CI WL++ + CP+
Sbjct: 36 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 78
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLDLPQNSLE 159
C ICL ED + + C H F CI W+ + TCP+C+ ++ +++E
Sbjct: 8 CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVHTIE 58
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 104 LECAICL---AEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152
+ C IC+ +E + L + T C HVF +C+ L++ TCP CR ++
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 59
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 104 LECAICL---AEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152
+ C IC+ +E + L + T C HVF +C+ L++ TCP CR ++
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 124
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 104 LECAICL---AEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152
+ C IC+ +E + L + T C HVF +C+ L++ TCP CR ++
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 31/97 (31%), Gaps = 22/97 (22%)
Query: 64 GNAAGTSDSPANPGLHPSLIQAFPAFAYSTVKDFRRQKYGLECAICLAEFED-------- 115
G GT+ A +A+ V D CAIC D
Sbjct: 17 GGGRGTNSGAGKKRFEVKKWNAVALWAWDIVVD--------NCAICRNHIMDLCIECQAN 68
Query: 116 ------DNILRLLTVCYHVFHQECIDLWLESHKTCPV 146
+ VC H FH CI WL++ + CP+
Sbjct: 69 QASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 105
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
L C +C F D + C H F + CI +LE+ K CP+C
Sbjct: 16 LMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 104 LECAICL---AEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVCRSDLD 152
+ C IC+ +E + L + T C HVF +C+ L++ TCP CR ++
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 55
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
L C +C F D + C H F + CI +LE+ K CP+C
Sbjct: 16 LMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 0.32, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
C ICL + ++ + C H+ H+ C + L+ CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 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 = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146
+EC A + VC H FH CI WL++ + CP+
Sbjct: 52 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 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 = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146
+EC A + VC H FH CI WL++ + CP+
Sbjct: 52 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 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 = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 20/43 (46%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPV 146
+EC A + VC H FH CI WL++ + CP+
Sbjct: 54 IECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 96
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 124 VCYHVFHQECIDLWLESHKTCPV 146
VC H FH CI WL++ + CP+
Sbjct: 66 VCNHAFHFHCISRWLKTRQVCPL 88
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKT---CPVC 147
LEC IC+ F ++ + L C H ++C++ L S CP C
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|2CSB|A Chain A, Crystal Structure Of Topoisomerase V From Methanopyrus
Kandleri (61 Kda Fragment)
pdb|2CSB|B Chain B, Crystal Structure Of Topoisomerase V From Methanopyrus
Kandleri (61 Kda Fragment)
Length = 519
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 101 KYGL--ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTC 144
+YG+ + A+CLA D +I + T Y C DL LE K+
Sbjct: 304 RYGIREDVALCLARAFDGSISXIATTPYRTLKDVCPDLTLEEAKSV 349
>pdb|4GFJ|A Chain A, Crystal Structure Of Topo-78, An N-Terminal 78kda Fragment
Of Topoisomerase V
Length = 685
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 101 KYGL--ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTC 144
+YG+ + A+CLA D +I + T Y C DL LE K+
Sbjct: 304 RYGIREDVALCLARAFDGSISMIATTPYRTLKDVCPDLTLEEAKSV 349
>pdb|2CSD|A Chain A, Crystal Structure Of Topoisomerase V (61 Kda Fragment)
pdb|2CSD|B Chain B, Crystal Structure Of Topoisomerase V (61 Kda Fragment)
Length = 519
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 101 KYGL--ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTC 144
+YG+ + A+CLA D +I + T Y C DL LE K+
Sbjct: 304 RYGIREDVALCLARAFDGSISMIATTPYRTLKDVCPDLTLEEAKSV 349
>pdb|3M6K|A Chain A, Crystal Structure Of N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6K|B Chain B, Crystal Structure Of N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6Z|A Chain A, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M6Z|B Chain B, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Guanidium
Hydrochloride
pdb|3M7D|A Chain A, Crystal Structure Of An N-Terminal 44 Kda Fragment Of
Topoisomerase V In The Presence Of Dioxane
Length = 380
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 101 KYGL--ECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTC 144
+YG+ + A+CLA D +I + T Y C DL LE K+
Sbjct: 304 RYGIREDVALCLARAFDGSISMIATTPYRTLKDVCPDLTLEEAKSV 349
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 106 CAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
C ICL + ++ + C H+ H+ C + L+ CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|1FLG|A Chain A, Crystal Structure Of The Quinoprotein Ethanol
Dehydrogenase From Pseudomonas Aeruginosa
pdb|1FLG|B Chain B, Crystal Structure Of The Quinoprotein Ethanol
Dehydrogenase From Pseudomonas Aeruginosa
Length = 582
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 29/122 (23%), Positives = 50/122 (40%), Gaps = 14/122 (11%)
Query: 166 RSNSMNNITGSNVSTLEDAISIFIKEDEEARGDNGEQVVNPNIIKQNERYEKIEKFSRSH 225
R + + + NV L A S + DE+ RG + +V+ +I Y ++ F+
Sbjct: 29 RWSPLKQVNADNVFKLTPAWS-YSFGDEKQRGQESQAIVSDGVIYVTASYSRL--FALDA 85
Query: 226 STGHSMHTTKNELEDRHTLRLPENVKL---KILRGHNWTGSCITFGEFGSPVTRNNVGFG 282
TG + T + RLP++++ + RG G + FG + V N G
Sbjct: 86 KTGKRLWT--------YNHRLPDDIRPCCDVVNRGAAIYGDKVFFGTLDASVVALNKNTG 137
Query: 283 DV 284
V
Sbjct: 138 KV 139
>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 = 27.3 bits (59), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 3/44 (6%)
Query: 104 LECAICLAEFEDDNILRLLTVCYHVFHQECIDLWLESHKTCPVC 147
L C IC FE NI ++ C H + CI +L CP C
Sbjct: 23 LRCGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
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
0.319 0.134 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,534,077
Number of Sequences: 62578
Number of extensions: 348095
Number of successful extensions: 740
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 33
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 705
Number of HSP's gapped (non-prelim): 38
length of query: 296
length of database: 14,973,337
effective HSP length: 98
effective length of query: 198
effective length of database: 8,840,693
effective search space: 1750457214
effective search space used: 1750457214
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)