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= 042258
(152 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 = 52.4 bits (124), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 27/49 (55%)
Query: 93 MTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141
M +CA+CL + +GE + P C H FH C+D WL CP+CR
Sbjct: 2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>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 = 1e-07, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 90 ETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
E + S +C +C +D+ GE+ + P CNH+FH CI WL+ +CPVCR L
Sbjct: 9 EEHVGSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 32/58 (55%), Gaps = 2/58 (3%)
Query: 85 SYK-NGETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141
SY+ N + T C +C+ DF + + P CNH FH C+D+WLK CP+CR
Sbjct: 11 SYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141
C ICL EGE + P C H+FH C+DQWL 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 = 3e-05, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 80 SLPQMSYKNGETEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPV 139
+LP++ + C IC ++++G+ P C+H FH C+ WL+ CPV
Sbjct: 24 ALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPV 82
Query: 140 CR 141
CR
Sbjct: 83 CR 84
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
C IC + FIE T C H F +CI++W+K ++ CP+CR +
Sbjct: 56 CIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 4/46 (8%)
Query: 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
C IC + FIE T C H F +CI++W+K ++ CP+CR +
Sbjct: 56 CIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 97
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
C IC + FIE T C H F +CI++W+K ++ CP+CR +
Sbjct: 66 QCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 1/54 (1%)
Query: 91 TEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
E+ + CA+CL+DF + P C H FH C+ +WL+ R CP+C P+
Sbjct: 10 KELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62
>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 = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 118 CNHIFHLHCIDQWLKHRLNCPV 139
CNH FH HCI +WLK R CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 118 CNHIFHLHCIDQWLKHRLNCPV 139
CNH FH HCI +WLK R CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 118 CNHIFHLHCIDQWLKHRLNCPV 139
CNH FH HCI +WLK R 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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 118 CNHIFHLHCIDQWLKHRLNCPV 139
CNH FH HCI +WLK R 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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 14/56 (25%)
Query: 98 DCAICLDDFIE-------------GETCK-SFPECNHIFHLHCIDQWLKHRLNCPV 139
+CAIC + ++ E C ++ CNH FH HCI +WLK R CP+
Sbjct: 31 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 86
>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 = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 23/50 (46%)
Query: 94 TSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNP 143
+ ++ C ICL+D C H+ H C ++ LK CP+C P
Sbjct: 3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 16/22 (72%)
Query: 118 CNHIFHLHCIDQWLKHRLNCPV 139
CNH FH HCI +WLK R CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 37.0 bits (84), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 14/56 (25%)
Query: 98 DCAICLDDFIE-------------GETCK-SFPECNHIFHLHCIDQWLKHRLNCPV 139
+CAIC + ++ E C ++ CNH FH HCI +WLK R CP+
Sbjct: 23 NCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 78
>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 = 0.010, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 11/53 (20%)
Query: 92 EMTSNTDCAICLD---DFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCR 141
++T +C IC+D D I P C H F CID+W NCP+CR
Sbjct: 11 QLTDEEECCICMDGRADLI-------LP-CAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 22/49 (44%)
Query: 92 EMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140
E S +C ICL+D C H+ H C ++ LK CP+C
Sbjct: 1 ENVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 94 TSNTDCAICLDDFIE----GETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
+ C IC+D + E G S EC H+F C+ LK+ CP CR +
Sbjct: 8 SGTVSCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.2 bits (69), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 94 TSNTDCAICLDDFIE----GETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
+ C IC+D + E G S EC H+F C+ LK+ CP CR +
Sbjct: 13 SGTVSCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>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 = 31.2 bits (69), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWL-KHRLNCPVCRNPL 144
C IC + + C P C+ + CI +WL + R CP CR PL
Sbjct: 25 CFICXEKLRDARLC---PHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 31.2 bits (69), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%)
Query: 115 FPECNHIFHLHCIDQWLKHRLNCPVCR 141
+ ECNH FH C+ W+K CP+C+
Sbjct: 45 WGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 93 MTSNT-DCAICLDDFIE----GETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
M S T C IC+D + E G S EC H+F C+ LK+ CP CR +
Sbjct: 3 MGSGTVSCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 94 TSNTDCAICLDDFIE----GETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
+ C IC+D + E G S EC H+F C+ LK+ CP CR +
Sbjct: 70 SGTVSCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>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 = 31.2 bits (69), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
C ICL+D + P C H F CI +W++ CP+C+ P+
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 5/51 (9%)
Query: 98 DCAICLDDFIE----GETCKSFPECNHIFHLHCIDQWLKHRLNCPVCRNPL 144
C IC+D + E G S EC H+F C+ LK+ CP CR +
Sbjct: 5 SCPICMDGYSEIVQNGRLIVS-TECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.3 bits (64), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 91 TEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140
TE+ + C +C FI+ T EC H F CI ++L+ CP+C
Sbjct: 6 TELNPHLMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 29.3 bits (64), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 91 TEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140
TE+ + C +C FI+ T EC H F CI ++L+ CP+C
Sbjct: 10 TELNPHLMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 21/42 (50%), Gaps = 3/42 (7%)
Query: 99 CAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140
C IC + F P+C+H + CI ++L ++ CP C
Sbjct: 25 CGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 21/46 (45%), Gaps = 3/46 (6%)
Query: 98 DCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLN---CPVC 140
+C IC++ F E + C H C+++ L +N CP C
Sbjct: 17 ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 91 TEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140
TE+ + C +C FI+ T EC H F CI ++L+ CP+C
Sbjct: 10 TELNPHLMCVLCGGYFIDATT---IIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|1SGF|A Chain A, Crystal Structure Of 7s Ngf: A Complex Of Nerve Growth
Factor With Four Binding Proteins (serine Proteinases)
pdb|1SGF|X Chain X, Crystal Structure Of 7s Ngf: A Complex Of Nerve Growth
Factor With Four Binding Proteins (serine Proteinases)
Length = 240
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 4/47 (8%)
Query: 2 WLLVSLYCYAVEVVIWL----ILERRNPWSGSLIDIMIPDPDVRFTL 44
W+L + +CY + +WL LE L+ IP PD +L
Sbjct: 38 WVLTAAHCYNDKYQVWLGKNNFLEDEPSDQHRLVSKAIPHPDFNMSL 84
>pdb|3TDG|A Chain A, Structural And Functional Characterization Of
Helicobacter Pylori Dsbg
Length = 273
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 33 IMIPDPDVRFTLKLAAVETGNWLSGLIQKF 62
++I DPD ++ + L + GN + GL F
Sbjct: 64 VVIEDPDTKYNIPLVVSKDGNLIIGLSNIF 93
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 25.8 bits (55), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 91 TEMTSNTDCAICLDDFIEGETCKSFPECNHIFHLHCIDQWLKHRLNCPVC 140
+E+T C+IC I+ T EC H F CI + + CP C
Sbjct: 10 SELTPYILCSICKGYLIDATT---ITECLHTFCKSCIVRHFYYSNRCPKC 56
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
0.324 0.141 0.475
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,039,478
Number of Sequences: 62578
Number of extensions: 204737
Number of successful extensions: 577
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 46
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 525
Number of HSP's gapped (non-prelim): 61
length of query: 152
length of database: 14,973,337
effective HSP length: 90
effective length of query: 62
effective length of database: 9,341,317
effective search space: 579161654
effective search space used: 579161654
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 47 (22.7 bits)