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= 048328
(318 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 = 73.6 bits (179), Expect = 1e-13, Method: Composition-based stats.
Identities = 25/51 (49%), Positives = 36/51 (70%)
Query: 61 EGTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPIL 111
+G +C+VCL+E ++ E R LP+C H FH C+D WL SH+ CPLCR ++
Sbjct: 4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 59.7 bits (143), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 38/58 (65%), Gaps = 1/58 (1%)
Query: 51 FKYKKDVGLIEGTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRA 108
+++ + E T C VC+ +F+ + LR+LP CNH FH C+D WL+++ CP+CRA
Sbjct: 12 YRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 62 GTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 107
G +C VC ++ ES+R LP CNH FH SCI WL H +CP+CR
Sbjct: 15 GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPI 110
C++CLS +E E +R LP C H FH C+D WL ++ CP+CR I
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPILSGA 114
C+VCL +F+ + L + P C HAFH C+ WL CPLC P+L A
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQLA 66
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 44.3 bits (103), Expect = 9e-05, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 28/43 (65%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 107
C C +E ++++ + + +CNH+FH C+ W++ + CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 107
C +C SE+ + + LP C+H FH C+ WL+ CP+CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>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 = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH CI WL++ CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH CI WL++ CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 5/49 (10%)
Query: 59 LIEGTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 107
L + +C +C+ D L+ C H+F CID W H NCP+CR
Sbjct: 12 LTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPILSGAF 115
C +C F E +L C H+F CI+ W++ CP+CR I S +
Sbjct: 56 CIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKTY 102
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH CI WL++ CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPILSGAF 115
C +C F E +L C H+F CI+ W++ CP+CR I S +
Sbjct: 56 CIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKTY 102
>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 = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 64 DCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPILSGAF 115
C +C F E +L C H+F CI+ W++ CP+CR I S +
Sbjct: 66 QCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDIKSKTY 113
>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 = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPILS 112
C +CL E + S+ L C HAF CI W+R + CPLC+ P+ S
Sbjct: 8 CPICL-EDPSNYSMAL--PCLHAFCYVCITRWIRQNPTCPLCKVPVES 52
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH CI WL++ CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH 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 = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH CI WL++ CPL
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 = 35.8 bits (81), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 84 CNHAFHISCIDTWLRSHTNCPL 105
CNHAFH CI WL++ CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 35.0 bits (79), Expect = 0.051, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWL-RSHTNCPLCRAPI 110
C +C + ++ RL P C+ SCI WL CP CRAP+
Sbjct: 25 CFICXEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 21/47 (44%)
Query: 63 TDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAP 109
+ C +CL + + + C H H +C + L+ CPLC P
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 33.1 bits (74), Expect = 0.20, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 10/55 (18%)
Query: 61 EGTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTN------CPLCRAP 109
E C +CL +E S CNH+F +CI S+ N CP+CR P
Sbjct: 18 EEVTCPICLELLKEPVS----ADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68
>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human
Tfiih Mat1 Subunit
Length = 65
Score = 32.0 bits (71), Expect = 0.48, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 65 CSVCLSEFQEDESLRLLPK-CNHAFHISCIDT-WLRSHTNCPLCRAPILSGAFVAQ 118
C C + + SL+L+ C H SC+D ++R NCP C P+ F Q
Sbjct: 6 CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQ 61
>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 = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 45 IDSIAVFKYKKDVGLIEGTD----CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSH 100
+DS+A ++ + +++ D C +C F ++P+C+H + CI +L
Sbjct: 1 MDSLAESRWPPGLAVMKTIDDLLRCGICFEYFN---IAMIIPQCSHNYCSLCIRKFLSYK 57
Query: 101 TNCPLC 106
T CP C
Sbjct: 58 TQCPTC 63
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRS----HTNCPLCR 107
C VC + ED+ L L +CN AFH+ C+ L CP C+
Sbjct: 3 CKVCRKK-GEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRAPILS 112
C +CL + + + +C H F CI T LRS + CP CR ++S
Sbjct: 57 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLVS 102
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRAPILS 112
C +CL + + + +C H F CI T LRS + CP CR ++S
Sbjct: 56 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLVS 101
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 3/52 (5%)
Query: 58 GLIEGTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTN---CPLC 106
L E +C +C+ F E++ L C H C++ L S N CP C
Sbjct: 11 ALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 21/47 (44%)
Query: 60 IEGTDCSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLC 106
+ +C +CL + + + C H H +C + L+ CPLC
Sbjct: 3 VSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 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 = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 65 CSVCL---SEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPI 110
C +C+ SE ++ L + +C H F C+ L++ CP CR I
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 65 CSVCL---SEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPI 110
C +C+ SE ++ L + +C H F C+ L++ CP CR I
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 65 CSVCL---SEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPI 110
C +C+ SE ++ L + +C H F C+ L++ CP CR I
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 65 CSVCL---SEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPI 110
C +C+ SE ++ L + +C H F C+ L++ CP CR I
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%), Gaps = 3/49 (6%)
Query: 65 CSVCL---SEFQEDESLRLLPKCNHAFHISCIDTWLRSHTNCPLCRAPI 110
C +C+ SE ++ L + +C H F C+ L++ CP CR I
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRAPILS 112
C +CL + + + +C H F CI T LRS + CP CR ++S
Sbjct: 37 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLVS 82
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRS-----HTNCPLCR 107
C +C D+ L + +C+ AFHI C+D L S CP CR
Sbjct: 193 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 239
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 6/48 (12%)
Query: 65 CSVCLSEFQEDESLRLLPKCNHAFHISCIDTWLRS-----HTNCPLCR 107
C +C D+ L + +C+ AFHI C+D L S CP CR
Sbjct: 177 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECR 223
>pdb|1WP6|A Chain A, Crystal Structure Of Maltohexaose-producing Amylase From
Alkalophilic Bacillus Sp.707.
pdb|1WPC|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase
Complexed With Pseudo-Maltononaose
pdb|2D3L|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase From
Bacillus Sp.707 Complexed With Maltopentaose.
pdb|2D3N|A Chain A, Crystal Structure Of Maltohexaose-Producing Amylase From
Bacillus Sp.707 Complexed With Maltohexaose
Length = 485
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 10/36 (27%)
Query: 28 LDHP----------IWYINTIGLPQSVIDSIAVFKY 53
+DHP +WY NT+GL ID++ KY
Sbjct: 208 MDHPEVVNELRNWGVWYTNTLGLDGFRIDAVKHIKY 243
>pdb|3LUA|A Chain A, Crystal Structure Of A Signal Receiver Domain Of Two
Component Signal Transduction (Histidine Kinase) From
Clostridium Thermocellum
Length = 140
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 13/18 (72%)
Query: 1 RNNSRRTNPPIIFATQED 18
RNNSR N P+I AT+ D
Sbjct: 74 RNNSRTANTPVIIATKSD 91
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 19/69 (27%)
Query: 39 GLPQSVIDSIAVFKYKKDVGLIEGTDCSVCL---------SEFQEDESLR-----LLPKC 84
G P+ VI KY +++ + DC +C+ S+ + ++L L KC
Sbjct: 7 GEPEQVIR-----KYTEELKVAPEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKC 61
Query: 85 NHAFHISCI 93
+HAFH+ C+
Sbjct: 62 SHAFHLLCL 70
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
0.318 0.133 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,833,243
Number of Sequences: 62578
Number of extensions: 270149
Number of successful extensions: 481
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 445
Number of HSP's gapped (non-prelim): 50
length of query: 318
length of database: 14,973,337
effective HSP length: 99
effective length of query: 219
effective length of database: 8,778,115
effective search space: 1922407185
effective search space used: 1922407185
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)