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= 033497
(118 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 10/108 (9%)
Query: 16 GSPIIDESFNLDEALTM-------ITNTSSTPPDQDQPKSHDGQTNSELTVSSLPTVAAT 68
GSP E + L E L I + +Q + + Q E +S + V
Sbjct: 4 GSPGFQEHWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLEN 63
Query: 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116
E +C +C E F++A + C H F + CI+ W+ CP+CR +
Sbjct: 64 ELQCIICSEYFIEAVT---LNCAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 33 ITNTSSTPPDQDQPKSHDGQTNSELTVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGH 92
I + +Q + + Q E +S + V E +C +C E F++A + C H
Sbjct: 17 IIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVT---LNCAH 73
Query: 93 VFHATCISTWISLSNSCPVCRSGV 116
F + CI+ W+ CP+CR +
Sbjct: 74 SFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 3/84 (3%)
Query: 33 ITNTSSTPPDQDQPKSHDGQTNSELTVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGH 92
I + +Q + + Q E +S + V E +C +C E F++A + C H
Sbjct: 17 IIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVT---LNCAH 73
Query: 93 VFHATCISTWISLSNSCPVCRSGV 116
F + CI+ W+ CP+CR +
Sbjct: 74 SFCSYCINEWMKRKIECPICRKDI 97
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 50.4 bits (119), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 27/43 (62%)
Query: 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113
C VC E++ +Q+PC H+FH +CI W+ +SCPVCR
Sbjct: 17 ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59
>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 = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 55 SELTVSSLPTVAATEGR--------CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLS 106
S+ ++ +LP + TE C +C +++ ++PC H FH C+S W+ S
Sbjct: 18 SKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKS 77
Query: 107 NSCPVCR 113
+CPVCR
Sbjct: 78 GTCPVCR 84
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 28/48 (58%)
Query: 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVIA 118
+CT+C+ + +++PC H+FH C+ W+ + CP+CR + A
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEA 63
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 26/43 (60%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRS 114
C VCM +F + +PC H FHA C+ W+ + +CP+CR+
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRA 68
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 42.7 bits (99), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 72 CTVCMENFLQAFPGKQVP-CGHVFHATCISTWISLSNSCPVCRSGVI 117
C VC+ + +P CGH FHA C+ W+ ++CP+CR V+
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGVI 117
C VC+E+F PC H FH C+ W+ + CP+C V+
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63
>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 = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 65 VAATEGRCTVCME---NFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116
+A RC +C+E N+ A P C H F CI+ WI + +CP+C+ V
Sbjct: 1 MATVAERCPICLEDPSNYSMALP-----CLHAFCYVCITRWIRQNPTCPLCKVPV 50
>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 = 36.6 bits (83), Expect = 0.003, Method: Composition-based stats.
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 45 QPKSHDGQTNSELTVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI- 103
+P HD ++ + +T C +C EN K PCGH+ +C++ W
Sbjct: 314 EPTPHDHIKVTQEQYELYCEMGSTFQLCKICAENDKDV---KIEPCGHLMCTSCLTAWQE 370
Query: 104 SLSNSCPVCR 113
S CP CR
Sbjct: 371 SDGQGCPFCR 380
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 4/45 (8%)
Query: 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113
E C +CM+ +PC H F CI W +CP+CR
Sbjct: 15 EEECCICMDGRADLI----LPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 35.8 bits (81), Expect = 0.006, Method: Composition-based stats.
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 6/69 (8%)
Query: 46 PKSHDGQTNSELTVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI-S 104
P+ H T + + + +T C +C EN K PCGH+ +C+++W S
Sbjct: 313 PQDHIKVTQEQFELXC--EMGSTFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQES 367
Query: 105 LSNSCPVCR 113
CP CR
Sbjct: 368 EGQGCPFCR 376
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 35.8 bits (81), Expect = 0.007, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWI-SLSNSCPVCR 113
C +C EN K PCGH+ +C+++W S CP CR
Sbjct: 335 CKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
>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 = 35.8 bits (81), Expect = 0.007, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWI-SLSNSCPVCR 113
C +C EN K PCGH+ +C+++W S CP CR
Sbjct: 335 CKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCR 374
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 35.4 bits (80), Expect = 0.007, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWI-SLSNSCPVCR 113
C +C EN K PCGH+ +C+++W S CP CR
Sbjct: 337 CKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCR 376
>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 = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 72 CTVCMENFLQAFPGKQV----PCGHVFHATCISTWISLSNSCPVCRSGV 116
C +CM+ + + ++ CGHVF + C+ + +N+CP CR +
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 72 CTVCMENFLQAFPGKQV----PCGHVFHATCISTWISLSNSCPVCRSGV 116
C +CM+ + + ++ CGHVF + C+ + +N+CP CR +
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 89 PCGHVFHATCISTWISLSNSCPVCRSGVI 117
C H FH C+S W+ +N CP+C+ +
Sbjct: 47 ECNHSFHNCCMSLWVKQNNRCPLCQQDWV 75
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 72 CTVCMENFLQAFPGKQV----PCGHVFHATCISTWISLSNSCPVCRSGV 116
C +CM+ + + ++ CGHVF + C+ + +N+CP CR +
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 72 CTVCMENFLQAFPGKQV----PCGHVFHATCISTWISLSNSCPVCRSGV 116
C +CM+ + + ++ CGHVF + C+ + +N+CP CR +
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 72 CTVCMENFLQAFPGKQV----PCGHVFHATCISTWISLSNSCPVCRSGV 116
C +CM+ + + ++ CGHVF + C+ + +N+CP CR +
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 32.7 bits (73), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 46 PKSHDGQTNSELTVSSLPTVAATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWI-S 104
P+ H T + + + +T C +C EN K PCGH+ +C+++W S
Sbjct: 6 PQDHIKVTQEQFELXC--EMGSTFQLCKICAENDKDV---KIEPCGHLMCTSCLTSWQES 60
Query: 105 LSNSCPVCRSGV 116
CP CR +
Sbjct: 61 EGQGCPFCRCEI 72
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 67 ATEGRCTVCMENFLQAFPGKQV-PCGHVFHATCISTWISLSNSCPVC 112
++ C +C+E+ + V PCGH+ H TC + CP+C
Sbjct: 3 VSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 0.065, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 72 CTVCMENFLQAFPGKQV-PCGHVFHATCISTWISLSNSCPVC 112
C +C+E+ + V PCGH+ H TC + CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWI-SLSNSCPVCRSGV 116
C +C EN K PCGH+ +C+++W S CP CR +
Sbjct: 27 CKICAENDKDV---KIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 69
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWI-SLSNSCPVCRSGV 116
C +C EN K PCGH+ +C++ W S CP CR +
Sbjct: 29 CKICAENDKDV---KIEPCGHLMCTSCLTAWQESDGQGCPFCRCEI 71
>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 = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVC 112
RC +C E F A Q C H + + CI ++S CP C
Sbjct: 24 RCGICFEYFNIAMIIPQ--CSHNYCSLCIRKFLSYKTQCPTC 63
>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 = 0.37, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVC 112
C +C F+ A + C H F TCI ++ S CP+C
Sbjct: 18 CVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVC 112
C +C F+ A + C H F TCI ++ S CP+C
Sbjct: 18 CVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 90 CGHVFHATCISTWISLSNSCPV 111
C H FH CIS W+ CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVC 112
C +C F+ A + C H F TCI ++ S CP+C
Sbjct: 14 CVLCGGYFIDA--TTIIECLHSFCKTCIVRYLETSKYCPIC 52
>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 = 0.74, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 6/48 (12%)
Query: 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTW---ISLSNSCPVC 112
E C+VC+E + + CGH F CI+ W + CPVC
Sbjct: 14 VEASCSVCLEYLKEPVI---IECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPV 111
C +C+ +A Q PCGH F CI I + CPV
Sbjct: 28 CPICLMALREAV---QTPCGHRFCKACIIKSIRDAGHKCPV 65
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 67 ATEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPV 111
++ C +C+ +A Q PCGH F CI I + CPV
Sbjct: 4 GSKYECPICLMALREAV---QTPCGHRFCKACIIKSIRDAGHKCPV 46
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 19/43 (44%), Gaps = 3/43 (6%)
Query: 71 RCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCR 113
C +C++ + +PC HVF C+ L C +CR
Sbjct: 17 ECAICLQTCVHPV---SLPCKHVFCYLCVKGASWLGKRCALCR 56
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The P1
Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The C2
Space Group
Length = 118
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 72 CTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPV 111
C +C+ +A Q PCGH F CI I + CPV
Sbjct: 21 CPICLMALREAV---QTPCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 15/28 (53%), Gaps = 3/28 (10%)
Query: 89 PCGHVFHATCISTWISLSNSCPVCRSGV 116
PCGH C + + SCPVCRS V
Sbjct: 35 PCGH---TVCCESCAAQLQSCPVCRSRV 59
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 4/45 (8%)
Query: 68 TEGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWIS-LSNSCPV 111
++ C +C+ +A Q PCGH F CI I + CPV
Sbjct: 17 SKYECPICLMALREAV---QTPCGHRFCKACIIKSIRDAGHKCPV 58
>pdb|2ECY|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger)" Domain Of Tnf Receptor-Associated Factor 3
Length = 66
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 86 KQVPCGHVFHATCISTWISLSN-SCPVCRSGVI 117
KQ CGH F +C++ +S S+ C C+ ++
Sbjct: 29 KQTECGHRFCESCMAALLSSSSPKCTACQESIV 61
>pdb|1M41|A Chain A, Crystal Structure Of Escherichia Coli Alkanesulfonate
Monooxygenase Ssud At 2.3 A Resolution
pdb|1M41|B Chain B, Crystal Structure Of Escherichia Coli Alkanesulfonate
Monooxygenase Ssud At 2.3 A Resolution
Length = 380
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 7 LAINTNIVSGSPIIDESFNLDEALTMITNTSSTPPDQDQPKSHDGQ 52
L I++ ++SG P ++E++ + E L + + + Q QP + G+
Sbjct: 321 LGIDSFVLSGYPHLEEAYRVGELLFPLLDVAIPEIPQPQPLNPQGE 366
>pdb|1NQK|A Chain A, Structural Genomics, Crystal Structure Of Alkanesulfonate
Monooxygenase
Length = 381
Score = 25.8 bits (55), Expect = 7.0, Method: Composition-based stats.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 7 LAINTNIVSGSPIIDESFNLDEALTMITNTSSTPPDQDQPKSHDGQ 52
L I++ ++SG P ++E++ + E L + + + Q QP + G+
Sbjct: 322 LGIDSFVLSGYPHLEEAYRVGELLFPLLDVAIPEIPQPQPLNPQGE 367
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 25.0 bits (53), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 69 EGRCTVCMENFLQAFPGKQVPCGHVFHATCISTWISLSNSCPVCRSGV 116
E C VC++ +A VPCGH+ A C CP+CR+ V
Sbjct: 13 ERTCKVCLD---RAVSIVFVPCGHLVCAECAPGL----QLCPICRAPV 53
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
0.316 0.128 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,570,962
Number of Sequences: 62578
Number of extensions: 123538
Number of successful extensions: 216
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 172
Number of HSP's gapped (non-prelim): 61
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)