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= 038049
(141 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 = 65.1 bits (157), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 25/43 (58%), Positives = 31/43 (72%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCR 123
CA+CL + DG+E R LP+C H FH C+D WL SHS+CP CR
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDA 131
C +C+ DF +R+LP CNH FH C+DKWL ++ +CP CR PS
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRADSGPSSG 75
>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 = 6e-08, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRL 126
C +C D+ G+ +R LP CNH FH +CI WL H SCP CR+ L
Sbjct: 18 CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCR 123
C ICL +G+++R LP C H FH C+D+WL+++ CP CR
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 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 = 2e-05, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKP 128
C IC +++ GD LP C+H FH C+ WL +CP CR P
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP 89
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTC 122
CA+CL DF DE+ + P C H FH C+ KWL 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 = 35.8 bits (81), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSD 130
C IC+ DG +LP C H F CIDKW H +CP CR ++ ++
Sbjct: 18 CCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN 62
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 35.0 bits (79), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 11/55 (20%)
Query: 81 CAICLLDFIDG-----------DEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQ 124
CAIC + +D D + + +CNH FH C+ W+ ++ CP C+Q
Sbjct: 18 CAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 4/60 (6%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMPSLDEIVT 140
C IC FI+ + C H F CI++W+ CP CR+ +K LD +
Sbjct: 56 CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNXIN 111
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMPSLD 136
C IC FI+ + C H F CI++W+ CP CR+ +K LD
Sbjct: 56 CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLD 107
>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 = 33.5 bits (75), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMPSLD 136
C IC FI+ + C H F CI++W+ CP CR+ +K LD
Sbjct: 67 CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLD 118
>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 = 32.3 bits (72), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 32/63 (50%), Gaps = 5/63 (7%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMPS--LDEI 138
C IC F + ++P+C+H + CI K+L + CPTC + D + LDE+
Sbjct: 25 CGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDEL 81
Query: 139 VTA 141
V +
Sbjct: 82 VKS 84
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 31.2 bits (69), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 84 CNHAFHFHCISRWLKTRQVCP 104
>pdb|3K1L|B Chain B, Crystal Structure Of Fancl
pdb|3K1L|A Chain A, Crystal Structure Of Fancl
Length = 381
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 15/66 (22%)
Query: 81 CAICLLDFIDGDEIRLL----PKCNHRFHVACIDKWL-----------LSHSSCPTCRQR 125
C IC +DG E+ L+ KC + H C+++W +S CP C+ +
Sbjct: 311 CNICFAYRLDGGEVPLVSCDNAKCVLKCHAVCLEEWFKTLMDGKTFLEVSFGQCPFCKAK 370
Query: 126 LKPSDA 131
L S A
Sbjct: 371 LSTSFA 376
>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 = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 75 CNHAFHFHCISRWLKTRQVCP 95
>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 = 30.8 bits (68), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>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 = 30.8 bits (68), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 65 CNHAFHFHCISRWLKTRQVCP 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 = 30.8 bits (68), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.8 bits (68), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 67 CNHAFHFHCISRWLKTRQVCP 87
>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 = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 100 CNHRFHVACIDKWLLSHSSCP 120
CNH FH CI +WL + CP
Sbjct: 57 CNHAFHFHCISRWLKTRQVCP 77
>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 = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCR 123
C ICL D + LP C H F CI +W+ + +CP C+
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 81 CAICLLDF---IDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMP 133
C IC+ + + + + +C H F C+ L + ++CPTCR+++ P
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 68
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 81 CAICLLDF---IDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMP 133
C IC+ + + + + +C H F C+ L + ++CPTCR+++ P
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 65
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 81 CAICLLDF---IDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMP 133
C IC+ + + + + +C H F C+ L + ++CPTCR+++ P
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 130
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 81 CAICLLDF---IDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLKPSDAMP 133
C IC+ + + + + +C H F C+ L + ++CPTCR+++ P
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHP 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 81 CAICLLDF---IDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTCRQRLK 127
C IC+ + + + + +C H F C+ L + ++CPTCR+++
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 99 KCNHRFHVACIDKWLLS-HSSCPTCRQRLKPSDAM---PSLDEIVT 140
+C HRF CI L S + CPTCR++L ++ P+ D +++
Sbjct: 52 ECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALIS 97
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 99 KCNHRFHVACIDKWLLS-HSSCPTCRQRLKPSDAM---PSLDEIVT 140
+C HRF CI L S + CPTCR++L ++ P+ D +++
Sbjct: 71 ECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFDALIS 116
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLS-HSSCPTCRQRLKPSDAM---PSLD 136
C ICL D + +C HRF CI L S + CPTCR++L ++ P+ D
Sbjct: 57 CPICL-DMLKN--TMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNFD 113
Query: 137 EIVT 140
+++
Sbjct: 114 ALIS 117
>pdb|1E08|A Chain A, Structural Model Of The [fe]-HydrogenaseCYTOCHROME C553
Complex Combining Nmr And Soft-Docking
pdb|1GX7|A Chain A, Best Model Of The Electron Transfer Complex Between
Cytochrome C3 And [fe]-Hydrogenase
Length = 371
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 28 QCVFQCTQRALTEPRQWV--VSRRLNSGLKRKEMVALPTVTYA 68
QC+ C + A+ E + WV V ++L G + + P V YA
Sbjct: 45 QCLTHCPENAIYEAQSWVPEVEKKLKDGKVKCIAMPAPAVRYA 87
>pdb|1HFE|L Chain L, 1.6 A Resolution Structure Of The Fe-Only Hydrogenase From
Desulfovibrio Desulfuricans
pdb|1HFE|M Chain M, 1.6 A Resolution Structure Of The Fe-Only Hydrogenase From
Desulfovibrio Desulfuricans
Length = 421
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 28 QCVFQCTQRALTEPRQWV--VSRRLNSGLKRKEMVALPTVTYA 68
QC+ C + A+ E + WV V ++L G + + P V YA
Sbjct: 71 QCLTHCPENAIYEAQSWVPEVEKKLKDGKVKCIAMPAPAVRYA 113
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTC 122
C +C FID I +C H F CI ++L + CP C
Sbjct: 14 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTC 122
C +C FID I +C H F CI ++L + CP C
Sbjct: 18 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTC 122
C +C FID I +C H F CI ++L + CP C
Sbjct: 18 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 26.2 bits (56), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSH-SSCPTCRQRLK 127
C IC D RL P C+ +CI +WL + CP CR L+
Sbjct: 25 CFICXEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ 69
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 25.8 bits (55), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 17/42 (40%)
Query: 81 CAICLLDFIDGDEIRLLPKCNHRFHVACIDKWLLSHSSCPTC 122
C ICL D + + C H H C ++ L CP C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 25.8 bits (55), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 100 CNHRFHVACI----DKWLL--SHSSCPTCRQRLKPSDAMPS 134
C H F AC+ K +L SSCP CR +P + P+
Sbjct: 37 CGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIRPN 77
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
0.327 0.136 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,243,048
Number of Sequences: 62578
Number of extensions: 97849
Number of successful extensions: 278
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 245
Number of HSP's gapped (non-prelim): 59
length of query: 141
length of database: 14,973,337
effective HSP length: 89
effective length of query: 52
effective length of database: 9,403,895
effective search space: 489002540
effective search space used: 489002540
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 46 (22.3 bits)