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= psy8809
(261 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 = 52.0 bits (123), Expect = 4e-07, Method: Composition-based stats.
Identities = 16/39 (41%), Positives = 28/39 (71%), Gaps = 2/39 (5%)
Query: 223 CIICREE--MQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
C +C+E+ + + ++LPCNH+FH SC+ W ++H +CP
Sbjct: 18 CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCP 56
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 44.7 bits (104), Expect = 5e-05, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 25/40 (62%), Gaps = 2/40 (5%)
Query: 222 VCIICREEMQSAS--KKLPCNHIFHTSCLRSWFQRHQTCP 259
+C++C + +S + LPCNH FH C+ W + ++TCP
Sbjct: 25 LCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCP 64
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 38.5 bits (88), Expect = 0.004, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 223 CIICREEMQSAS--KKLPCNHIFHTSCLRSWFQRHQTCP 259
C IC ++ ++LPC H+FH C+ W ++ CP
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCP 55
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 38.5 bits (88), Expect = 0.004, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 223 CIICREEMQSA--SKKLP-CNHIFHTSCLRSWFQRHQTCP 259
C +C E++ ++ LP C H FH C+ W H TCP
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCP 47
>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 = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 222 VCIICREE--MQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
C IC E + +LPC+H FH C+ W Q+ TCP
Sbjct: 42 CCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCP 81
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 37.4 bits (85), Expect = 0.008, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 222 VCIICREEMQSASKK--LPCNHIFHTSCLRSWFQRHQTCP 259
+C +C E+ + + PC H FH CL W + + CP
Sbjct: 17 LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCP 56
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 37.0 bits (84), Expect = 0.010, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
+LT+ + CI C + A LPC H F C+ W RH+ CP
Sbjct: 11 QLTDEEECCI-CMD--GRADLILPCAHSFCQKCIDKWSDRHRNCP 52
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 35.0 bits (79), Expect = 0.044, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRH-QTCP 259
E+ +C IC E + K PC H+ TSCL SW + Q CP
Sbjct: 22 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTSWQESEGQGCP 66
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 35.0 bits (79), Expect = 0.044, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRH-QTCP 259
E+ +C IC E + K PC H+ TSCL SW + Q CP
Sbjct: 19 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTSWQESEGQGCP 63
>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 = 35.0 bits (79), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQ-RHQTCP 259
E+ +C IC E + K PC H+ TSCL SW + Q CP
Sbjct: 327 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTSWQESEGQGCP 371
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQ-RHQTCP 259
E+ +C IC E + K PC H+ TSCL SW + Q CP
Sbjct: 329 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTSWQESEGQGCP 373
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQ-RHQTCP 259
E+ +C IC E + K PC H+ TSCL SW + Q CP
Sbjct: 327 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTSWQESEGQGCP 371
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQ-RHQTCP 259
E+ +C IC E + K PC H+ TSCL SW + Q CP
Sbjct: 329 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTSWQESEGQGCP 373
>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 = 34.3 bits (77), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 223 CIICREEMQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
C IC E+ + S LPC H F C+ W +++ TCP
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCP 44
>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 = 0.082, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 22/53 (41%), Gaps = 14/53 (26%)
Query: 221 NVCIICREEMQSASKKL--------------PCNHIFHTSCLRSWFQRHQTCP 259
+ C ICR ++ A + CNH FH C+ W +++ CP
Sbjct: 16 DTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCP 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 = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRH-QTCP 259
E+ +C IC E + K PC H+ TSCL +W + Q CP
Sbjct: 333 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTAWQESDGQGCP 377
>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 = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 51 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 95
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 60 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 104
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 33.5 bits (75), Expect = 0.13, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 215 ELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRH-QTCP 259
E+ +C IC E + K PC H+ TSCL +W + Q CP
Sbjct: 21 EMGSTFQLCKICAENDKDV-KIEPCGHLMCTSCLTAWQESDGQGCP 65
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 49 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 93
>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 = 33.1 bits (74), Expect = 0.18, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 223 CIICREEMQSA---SKKLPCNHIFHTSCLRSWFQRHQTCP 259
C IC E++ ++ + LPC H+ H +C + CP
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCP 47
>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 = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 41 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 85
>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 = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 49 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 93
>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 = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 33 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 77
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.3 bits (72), Expect = 0.28, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 223 CIICREEMQSA---SKKLPCNHIFHTSCLRSWFQRHQTCP 259
C IC E++ ++ + LPC H+ H +C + CP
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCP 47
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 NVCIICREEMQSASKKLP------CNHIFHTSCLRSWFQRHQTCP 259
++CI C+ SA+ + CNH FH C+ W + Q CP
Sbjct: 43 DLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCP 87
>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 = 30.8 bits (68), Expect = 0.83, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 239 CNHIFHTSCLRSWFQRHQTCPT 260
C H+F + CLR + TCPT
Sbjct: 35 CGHVFCSQCLRDSLKNANTCPT 56
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.8 bits (68), Expect = 0.83, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 239 CNHIFHTSCLRSWFQRHQTCPT 260
C H+F + CLR + TCPT
Sbjct: 40 CGHVFCSQCLRDSLKNANTCPT 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.4 bits (67), Expect = 1.0, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 239 CNHIFHTSCLRSWFQRHQTCPT 260
C H+F + CLR + TCPT
Sbjct: 28 CGHVFCSQCLRDSLKNANTCPT 49
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 239 CNHIFHTSCLRSWFQRHQTCPT 260
C H+F + CLR + TCPT
Sbjct: 32 CGHVFCSQCLRDSLKNANTCPT 53
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 239 CNHIFHTSCLRSWFQRHQTCPT 260
C H+F + CLR + TCPT
Sbjct: 97 CGHVFCSQCLRDSLKNANTCPT 118
>pdb|2GK9|A Chain A, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
pdb|2GK9|B Chain B, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
pdb|2GK9|C Chain C, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
pdb|2GK9|D Chain D, Human Phosphatidylinositol-4-Phosphate 5-Kinase, Type Ii,
Gamma
Length = 392
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 26/47 (55%)
Query: 214 DELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRHQTCPT 260
+EL++ ++ ++ +++SK NH+FH L S F+ + CP
Sbjct: 31 NELSQVPPPVMLLPDDFKASSKIKVNNHLFHRENLPSHFKFKEYCPQ 77
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 201 IHHLNNSFPDATSDELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
+ H+N D +EL CIIC E A L C H F + C+ W +R CP
Sbjct: 43 LSHMN----DVLENELQ-----CIICSEYFIEAVT-LNCAHSFCSYCINEWMKRKIECP 91
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 201 IHHLNNSFPDATSDELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
+ H+N D +EL CIIC E A L C H F + C+ W +R CP
Sbjct: 43 LSHMN----DVLENELQ-----CIICSEYFIEAVT-LNCAHSFCSYCINEWMKRKIECP 91
>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 = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 26/59 (44%), Gaps = 10/59 (16%)
Query: 201 IHHLNNSFPDATSDELTEADNVCIICREEMQSASKKLPCNHIFHTSCLRSWFQRHQTCP 259
+ H+N D +EL CIIC E A L C H F + C+ W +R CP
Sbjct: 54 LSHMN----DVLENELQ-----CIICSEYFIEAVT-LNCAHSFCSYCINEWMKRKIECP 102
>pdb|2XI2|A Chain A, Hcv-H77 Ns5b Apo Polymerase
pdb|2XI2|B Chain B, Hcv-H77 Ns5b Apo Polymerase
pdb|2XI2|C Chain C, Hcv-H77 Ns5b Apo Polymerase
pdb|2XI3|A Chain A, Hcv-H77 Ns5b Polymerase Complexed With Gtp
pdb|2XI3|B Chain B, Hcv-H77 Ns5b Polymerase Complexed With Gtp
Length = 576
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 179 PMYYAARSFRKALKDV-INSRRAIHHLNNSFPDATSDELTEADNVCIICREEM 230
P + A F KDV ++R+A+ H+N+ + D D +T D I+ + E+
Sbjct: 93 PPHSAKSKFGYGAKDVRCHARKAVAHINSVWKDLLEDSVTPIDTT-IMAKNEV 144
>pdb|3QGH|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Genotype 1a Complex With
N-Cyclopropyl-6-[(3r)-3-{[4-
(Trifluoromethoxy)benzyl]carbamoyl}-4-{[4-
(Trifluoromethoxy)
Phenyl]sulfonyl}piperazin-1-Yl]pyridazine-3-Carboxamide
pdb|3QGI|A Chain A, Crystal Structure Of The Hepatitis C Virus Ns5b
Rna-Dependent Rna Polymerase Genotype 1a Complex With
N-[(2s)-Butan-2-Yl]-6-[(3r)-3-
{[4-(Trifluoromethoxy)benzyl]carbamoyl}-4-{[4-
(Trifluoromethoxy)
Phenyl]sulfonyl}piperazin-1-Yl]pyridazine-3-Carboxamide
Length = 571
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 179 PMYYAARSFRKALKDV-INSRRAIHHLNNSFPDATSDELTEADNVCIICREEM 230
P + A F KDV ++R+A+ H+N+ + D D +T D I+ + E+
Sbjct: 94 PPHSAKSKFGYGAKDVRCHARKAVAHINSVWKDLLEDSVTPIDTT-IMAKNEV 145
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
0.334 0.142 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,322,107
Number of Sequences: 62578
Number of extensions: 213715
Number of successful extensions: 705
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 675
Number of HSP's gapped (non-prelim): 40
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 50 (23.9 bits)