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= 042750
(337 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 = 70.9 bits (172), Expect = 1e-12, Method: Composition-based stats.
Identities = 25/44 (56%), Positives = 34/44 (77%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
ECAVCL E ++ E+ R +P CGH FH +C+D+WL S++ CPLCR
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 30/43 (69%), Gaps = 1/43 (2%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C VC+ +F+ + LR++P C H FH C+D WL++N CP+CR
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
+C +CL+ +E E +R +P C H+FH C+D WL +N CP+CR
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 47.8 bits (112), Expect = 8e-06, Method: Composition-based stats.
Identities = 19/44 (43%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
EC VC ++ E +R +P C H+FH CI WL+ + +CP+CR
Sbjct: 17 ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 44.3 bits (103), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLC 172
CAVCL +F+ ++L I P C H FH C+ WL+ CPLC
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>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 = 44.3 bits (103), Expect = 1e-04, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C +C +E+ + + +P C H FH C+ +WLQ + CP+CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>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 = 0.002, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C C E ++ + + + C H FH C+ +W++ N CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>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 = 36.2 bits (82), Expect = 0.026, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 131 CAVCLNEFQE---NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C +C++ + E N +L + CGHVF C+ L++ CP CR
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 36.2 bits (82), Expect = 0.027, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 127 SFCECAVCLNEFQE---NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
+ C +C++ + E N +L + CGHVF C+ L++ CP CR
Sbjct: 2 AMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 35.4 bits (80), Expect = 0.048, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCR 173
+F C +C EN+K I CGH+ C+ W +S+ CP CR
Sbjct: 25 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCR 68
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCR 173
+F C +C EN+K I CGH+ C+ W +S+ CP CR
Sbjct: 337 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCR 380
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 5/44 (11%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
EC +C++ + +I C H F CID W + NCP+CR
Sbjct: 17 ECCICMDG-----RADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 35.0 bits (79), Expect = 0.064, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLC 172
C +CL + + + + CGH+ H C + L+ CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.0 bits (79), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
+C +C F E + NC H F CI+ W++ CP+CR
Sbjct: 55 QCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 34.7 bits (78), Expect = 0.071, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 21/42 (50%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLC 172
C +CL + + + + CGH+ H C + L+ CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 34.7 bits (78), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
+C +C F E + NC H F CI+ W++ CP+CR
Sbjct: 66 QCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKIECPICR 105
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 130 ECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
+C +C F E + NC H F CI+ W++ CP+CR
Sbjct: 55 QCIICSEYFIE----AVTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 33.9 bits (76), Expect = 0.12, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCR 173
+F C +C EN+K I CGH+ C+ W +S CP CR
Sbjct: 23 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 66
>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 = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 131 CAVCLNEFQE---NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C +C++ + E N +L + CGHVF C+ L++ CP CR
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 131 CAVCLNEFQE---NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C +C++ + E N +L + CGHVF C+ L++ CP CR
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
>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 = 33.9 bits (76), Expect = 0.13, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 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 = 33.9 bits (76), Expect = 0.14, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 131 CAVCLNEFQE---NEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C +C++ + E N +L + CGHVF C+ L++ CP CR
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCR 173
+F C +C EN+K I CGH+ C+ W +S CP CR
Sbjct: 333 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 376
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCR 173
+F C +C EN+K I CGH+ C+ W +S CP CR
Sbjct: 333 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 376
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCR 173
+F C +C EN+K I CGH+ C+ W +S CP CR
Sbjct: 331 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
>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 = 33.9 bits (76), Expect = 0.14, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNA-NCPLCR 173
+F C +C EN+K I CGH+ C+ W +S CP CR
Sbjct: 331 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
>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 = 0.16, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 33.5 bits (75), Expect = 0.16, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 127 SFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-CPLCR 173
+F C +C EN+K I CGH+ C+ W +S CP CR
Sbjct: 26 TFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 69
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%), Gaps = 3/50 (6%)
Query: 126 RSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN---CPLC 172
R EC +C+ F E + + +CGH C++ L S+ N CP C
Sbjct: 13 REVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>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 = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNANCPLCR 173
C +CL E N + + C H F CI W++ N CPLC+
Sbjct: 8 CPICL-EDPSNYSMAL--PCLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 150 CGHVFHIDCIDVWLQSNANCPL 171
C H FH CI WL++ CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|1U08|A Chain A, Crystal Structure And Reactivity Of Ybdl From Escherichia
Coli Identify A Methionine Aminotransferase Function.
pdb|1U08|B Chain B, Crystal Structure And Reactivity Of Ybdl From Escherichia
Coli Identify A Methionine Aminotransferase Function
Length = 386
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 240 SGELSGHSISPSPRKLDQRFVHKRAR-KLHKPIRRSFSMDSSADPKLYLAIQEAVQQKRQ 298
+G G+ ++P+P + R VH+ ++ P + + + A+P+ YLA+ + +QKR
Sbjct: 241 TGWKVGYCVAPAPISAEIRKVHQYLTFSVNTPAQLALADMLRAEPEHYLALPDFYRQKRD 300
Query: 299 V 299
+
Sbjct: 301 I 301
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 28.5 bits (62), Expect = 5.0, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 6/55 (10%)
Query: 124 GERSFCECAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN-----CPLCR 173
G C C +C Q+ +K + C FHI C+D L S + CP CR
Sbjct: 1 GHMRVCACHLCGGR-QDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 54
>pdb|3TD3|A Chain A, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|B Chain B, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|C Chain C, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|D Chain D, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|E Chain E, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|F Chain F, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|G Chain G, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD3|H Chain H, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Glycine
pdb|3TD4|A Chain A, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|B Chain B, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|C Chain C, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|D Chain D, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|E Chain E, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|F Chain F, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|G Chain G, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD4|H Chain H, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With Diaminopimelate
pdb|3TD5|A Chain A, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|B Chain B, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|C Chain C, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|D Chain D, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|E Chain E, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|F Chain F, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|G Chain G, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
pdb|3TD5|H Chain H, Crystal Structure Of Ompa-Like Domain From Acinetobacter
Baumannii In Complex With
L-Ala-Gamma-D-Glu-M-Dap-D-Ala-D-Ala
Length = 123
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 11/41 (26%), Positives = 23/41 (56%)
Query: 240 SGELSGHSISPSPRKLDQRFVHKRARKLHKPIRRSFSMDSS 280
+ + GH+ + PRKL++R RA + + +++D+S
Sbjct: 47 TARIEGHTDNTGPRKLNERLSLARANSVKSALVNEYNVDAS 87
>pdb|2PUY|A Chain A, Crystal Structure Of The Bhc80 Phd Finger
pdb|2PUY|B Chain B, Crystal Structure Of The Bhc80 Phd Finger
Length = 60
Score = 28.5 bits (62), Expect = 5.9, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 8/47 (17%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN----CPLCR 173
C+VC +++ +L + C V+H+DC+D L++ CP C+
Sbjct: 8 CSVC----RKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ 50
>pdb|2YQL|A Chain A, Solution Structure Of The Phd Domain In Phd Finger Protein
21a
Length = 56
Score = 28.1 bits (61), Expect = 7.0, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 8/47 (17%)
Query: 131 CAVCLNEFQENEKLRIIPNCGHVFHIDCIDVWLQSNAN----CPLCR 173
C+VC +++ +L + C V+H+DC+D L++ CP C+
Sbjct: 12 CSVC----RKSGQLLMCDTCSRVYHLDCLDPPLKTIPKGMWICPRCQ 54
>pdb|4EHX|A Chain A, Crystal Structure Of Lpxk From Aquifex Aeolicus At 1.9
Angstrom Resolution
pdb|4EHY|A Chain A, Crystal Structure Of Lpxk From Aquifex Aeolicus In Complex
With AdpMG2+ AT 2.2 ANGSTROM RESOLUTION
Length = 315
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 7/58 (12%)
Query: 212 SDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRFVHKRARKLHK 269
DE +++ +L H S ++A+++R G L+ +SP LD F H RKLH+
Sbjct: 98 GDEPYLMAKLLPHVS----VVASEDRYKGGLLALEKLSPEVFILDDGFQH---RKLHR 148
>pdb|4EHW|A Chain A, Crystal Structure Of Lpxk From Aquifex Aeolicus At 2.3
Angstrom Resolution
Length = 317
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 7/58 (12%)
Query: 212 SDEDFVVIELGNHHSTDQTLLATQERLNSGELSGHSISPSPRKLDQRFVHKRARKLHK 269
DE +++ +L H S ++A+++R G L+ +SP LD F H RKLH+
Sbjct: 100 GDEPYLMAKLLPHVS----VVASEDRYKGGLLALEKLSPEVFILDDGFQH---RKLHR 150
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 0.136 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,845,797
Number of Sequences: 62578
Number of extensions: 308423
Number of successful extensions: 547
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 513
Number of HSP's gapped (non-prelim): 54
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)