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= 018110
(360 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 = 74.7 bits (182), Expect = 7e-14, Method: Composition-based stats.
Identities = 27/51 (52%), Positives = 36/51 (70%)
Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIV 213
+G EC+VCL+E ++ E R LP+C H FH C+D WL SH+ CPLCR +V
Sbjct: 4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 40/62 (64%), Gaps = 1/62 (1%)
Query: 149 EIAVLKYKKSDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLC 208
++ ++ ++ E T C VC+ +F+ + LR+LP CNH FH C+D WL+++ CP+C
Sbjct: 8 QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPIC 66
Query: 209 RS 210
R+
Sbjct: 67 RA 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 = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 27/59 (45%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 164 GTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
G EC VC ++ E++R LP CNH FH SCI WL H +CP+CR + N A P
Sbjct: 15 GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPP 72
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 51.2 bits (121), Expect = 9e-07, Method: Composition-based stats.
Identities = 24/59 (40%), Positives = 35/59 (59%), Gaps = 3/59 (5%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAPPSS 225
C+VCL +F+ + L + P C HAFH C+ WL CPLC P++++ A + PSS
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVLQL--AQLSGPSS 73
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 31/47 (65%), Gaps = 1/47 (2%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
+C++CLS +E E +R LP C H FH C+D WL ++ CP+CR I
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61
>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 = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 209
C +C SE+ + + LP C+H FH C+ WL+ CP+CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 43.5 bits (101), Expect = 2e-04, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 28/43 (65%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCR 209
C C +E ++++ + + +CNH+FH C+ W++ + CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 161 LVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAAR 220
L + EC +C+ D L+ C H+F CID W H NCP+CR + N +
Sbjct: 12 LTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANES-- 64
Query: 221 APPSSS 226
+ PSS
Sbjct: 65 SGPSSG 70
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 39.7 bits (91), Expect = 0.003, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 64 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 105
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 158 SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
+D L +C +C F E TL C H+F CI+ W++ CP+CR I
Sbjct: 47 NDVLENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 158 SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
+D L +C +C F E TL C H+F CI+ W++ CP+CR I
Sbjct: 47 NDVLENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 97
>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 = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 45 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 86
>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 = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 55 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 96
>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 = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 158 SDGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPI 212
+D L +C +C F E TL C H+F CI+ W++ CP+CR I
Sbjct: 58 NDVLENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 108
>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 = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 53 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>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 = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 37 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 78
>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 = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 53 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 94
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH 217
C +CL ++ + C HAF CI W+R + CPLC+ P+ + H
Sbjct: 8 CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVVH 55
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPL 207
EC + +E CNHAFH CI WL++ CPL
Sbjct: 47 ECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPL 88
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 159 DGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN---CPLCRSPIVKI 215
D L E EC +C+ F E++ L C H C++ L S N CP C S I +I
Sbjct: 10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC-SKITRI 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 = 0.17, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 21/47 (44%)
Query: 165 TECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSP 211
+ C +CL + + + C H H +C + L+ CPLC P
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 20/104 (19%)
Query: 127 GPVVDHPIWYINTVGLQS-SVIREIAVLKYKKS--DGLVEGTE-------------CSVC 170
GP+ H + T G Q S E+++ + +++ + + +G E C +C
Sbjct: 1 GPLGSHMSQAVQTNGTQPLSKTWELSLYELQRTPQEAITDGLEIVVSPRSLHSELMCPIC 60
Query: 171 LSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIV 213
L + T + +C H F CI T LRS + CP CR +V
Sbjct: 61 LDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLV 101
>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 = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 167 CSVCL---SEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
C +C+ SE ++ L + +C H F C+ L++ CP CR KINH P
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK---KINHKRYHP 68
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 167 CSVCL---SEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
C +C+ SE ++ L + +C H F C+ L++ CP CR KINH P
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK---KINHKRYHP 65
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 167 CSVCL---SEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
C +C+ SE ++ L + +C H F C+ L++ CP CR KINH P
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK---KINHKRYHP 130
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 32.0 bits (71), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 167 CSVCL---SEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAARAP 222
C +C+ SE ++ L + +C H F C+ L++ CP CR KINH P
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK---KINHKRYHP 61
>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human
Tfiih Mat1 Subunit
Length = 65
Score = 31.6 bits (70), Expect = 0.77, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 167 CSVCLSEFQEDETLRLLPK-CNHAFHISCIDT-WLRSHTNCPLCRSPIVKIN 216
C C + + +L+L+ C H SC+D ++R NCP C +P+ K N
Sbjct: 6 CPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLRKSN 57
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 167 CSVCL---SEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINH 217
C +C+ SE ++ L + +C H F C+ L++ CP CR KINH
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK---KINH 68
>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 = 0.86, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 159 DGLVEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWL-RSHTNCPLCRSPI 212
+ + E C +C + ++ RL P C+ SCI WL CP CR+P+
Sbjct: 17 ESIAEVFRCFICXEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIV 213
C +CL + T + +C H F CI T LRS + CP CR +V
Sbjct: 56 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLV 100
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 7/52 (13%)
Query: 166 ECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWL---RSHTNCPLCRSPIVK 214
EC +CL +E + KC+H F C+ L + + CPLC++ I K
Sbjct: 23 ECPICLELIKEPVS----TKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITK 70
>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 = 1.8, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 162 VEGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLC 208
V C +CL + + + C H H +C + L+ CPLC
Sbjct: 3 VSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 4/48 (8%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-HTNCPLCRSPIV 213
C +CL + T + +C H F CI T LRS + CP CR +V
Sbjct: 37 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRKKLV 81
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 29.3 bits (64), Expect = 3.1, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS----HTNCPLCR 209
C VC + ED+ L L +CN AFH+ C+ L CP C+
Sbjct: 3 CKVCRKK-GEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48
>pdb|1QDB|A Chain A, Cytochrome C Nitrite Reductase
pdb|1QDB|B Chain B, Cytochrome C Nitrite Reductase
pdb|1QDB|C Chain C, Cytochrome C Nitrite Reductase
Length = 473
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 9/62 (14%)
Query: 275 SDDEIQPIRRSVSLDSLSASKMIHALGNF--DPEETTR-----NSDTQLAKERYLSVKTV 327
SD+E++ +R+ + A I A GN+ PEET R + D Q K R L VK +
Sbjct: 340 SDEELKEVRKLIRHGQFKADMAIAAHGNYFHAPEETLRLLAAGSDDAQ--KARLLLVKIL 397
Query: 328 PK 329
K
Sbjct: 398 AK 399
>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 = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLC 208
C +C F ++P+C+H + CI +L T CP C
Sbjct: 25 CGICFEYFN---IAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 10/55 (18%)
Query: 163 EGTECSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSH------TNCPLCRSP 211
E C +CL +E + CNH+F +CI S+ NCP+CR P
Sbjct: 18 EEVTCPICLELLKEPVSA----DCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68
>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 = 6.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-----HTNCPLCRS 210
C +C D+ L + +C+ AFHI C+D L S CP CR+
Sbjct: 193 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 240
>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 = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 6/49 (12%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRS-----HTNCPLCRS 210
C +C D+ L + +C+ AFHI C+D L S CP CR+
Sbjct: 177 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 224
>pdb|3F0N|A Chain A, Mus Musculus Mevalonate Pyrophosphate Decarboxylase
pdb|3F0N|B Chain B, Mus Musculus Mevalonate Pyrophosphate Decarboxylase
Length = 414
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 138 NTVGLQSSVIREIAVLKYKKSDGLVEGT-ECSVCLSEFQEDETLRLLPKCNHAFHISCID 196
+TVG+Q+SV +LK++ + E E + C+ E +L K ++ FH +C+D
Sbjct: 225 STVGMQTSV-ETSTLLKFRAESVVPERMKEMTRCIQEQDFQGFAQLTMKDSNQFHATCLD 283
Query: 197 TW 198
T+
Sbjct: 284 TF 285
>pdb|2DTG|E Chain E, Insulin Receptor (Ir) Ectodomain In Complex With Fab's
Length = 897
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 13 KYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCH 51
+Y I+ CPS ++ ++ C+P CL CP CH
Sbjct: 276 QYVIHNNKCIPECPSGYTMNSSNLLCTP-CLGPCPKVCH 313
>pdb|3LOH|E Chain E, Structure Of The Insulin Receptor Ectodomain, Including Ct
P
Length = 917
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 13 KYSINEAATADICPSYCDLSDTSSFCSPPCLTSCPSYCH 51
+Y I+ CPS ++ ++ C+P CL CP CH
Sbjct: 276 QYVIHNNKCIPECPSGYTMNSSNLLCTP-CLGPCPKVCH 313
>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
Length = 57
Score = 27.7 bits (60), Expect = 9.3, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTN-----CPLCRS 210
C +C D+ L + +C+ AFHI C+D L S + CP CR+
Sbjct: 8 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 55
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 27.7 bits (60), Expect = 9.9, Method: Composition-based stats.
Identities = 16/54 (29%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 167 CSVCLSEFQEDETLRLLPKCNHAFHISCIDTWLRSHTNCPLCRSPIVKINHAAR 220
C +C FQ ++ KC H F SC R+ C +C P I + A+
Sbjct: 18 CFICRQAFQNP----VVTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAK 67
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 0.132 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,212,754
Number of Sequences: 62578
Number of extensions: 400341
Number of successful extensions: 1006
Number of sequences better than 100.0: 59
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 966
Number of HSP's gapped (non-prelim): 68
length of query: 360
length of database: 14,973,337
effective HSP length: 100
effective length of query: 260
effective length of database: 8,715,537
effective search space: 2266039620
effective search space used: 2266039620
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)