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= 044619
(281 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 = 73.9 bits (180), Expect = 9e-14, Method: Composition-based stats.
Identities = 28/47 (59%), Positives = 34/47 (72%)
Query: 145 EGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCR 191
+G +C+VCL+E E+ E R LP+C H FH CVD WL SHS CPLCR
Sbjct: 4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 27/49 (55%), Positives = 36/49 (73%), Gaps = 1/49 (2%)
Query: 145 EGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRAN 193
E T C VC+ +FE + LR+LP CNH FH CVD+WLK++ CP+CRA+
Sbjct: 22 EQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRAD 69
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 32/46 (69%), Gaps = 1/46 (2%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
C++CLS EE E +R LP C H FH CVD+WL ++ CP+CR ++
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 53.9 bits (128), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 38/62 (61%), Gaps = 1/62 (1%)
Query: 146 GTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANLFLISASPQLPP 205
G +C VC ++ ES+R LP CNH FH +C+ WL+ H +CP+CR +L + + P
Sbjct: 15 GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTATNPPG 73
Query: 206 IT 207
+T
Sbjct: 74 LT 75
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLC 190
C+VCL +F+ + L + P C HAFH C+ +WL+ CPLC
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 30/45 (66%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRAN 193
C C +E ++++ + + +CNH+FH C+ W+K ++ CPLC+ +
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQD 73
>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 = 41.6 bits (96), Expect = 5e-04, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 126 EVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHS 185
++++ + +C+ D IE C + +E CNHAFH C+ RWLK+
Sbjct: 18 DIVVDNCAICRNHIMDLCIE---CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ 74
Query: 186 NCPL 189
CPL
Sbjct: 75 VCPL 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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 115 EPWHVPTRGLDEVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHV 174
+ W+ ++++ + +C+ D IE C + +E CNHAFH
Sbjct: 23 KKWNAVALWAWDIVVDNCAICRNHIXDLCIE---CQANQASATSEECTVAWGVCNHAFHF 79
Query: 175 ACVDRWLKSHSNCPL 189
C+ RWLK+ CPL
Sbjct: 80 HCISRWLKTRQVCPL 94
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRA 192
C +C SE+ + + LP C+H FH CV WL+ CP+CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRC 85
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 115 EPWHVPTRGLDEVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHV 174
+ W+ ++++ + +C+ D IE C + +E CNHAFH
Sbjct: 25 KKWNAVALWAWDIVVDNCAICRNHIMDLCIE---CQANQASATSEECTVAWGVCNHAFHF 81
Query: 175 ACVDRWLKSHSNCPL 189
C+ RWLK+ CPL
Sbjct: 82 HCISRWLKTRQVCPL 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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 115 EPWHVPTRGLDEVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHV 174
+ W+ ++++ + +C+ D IE C + +E CNHAFH
Sbjct: 23 KKWNAVALWAWDIVVDNCAICRNHIMDLCIE---CQANQASATSEECTVAWGVCNHAFHF 79
Query: 175 ACVDRWLKSHSNCPL 189
C+ RWLK+ CPL
Sbjct: 80 HCISRWLKTRQVCPL 94
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 115 EPWHVPTRGLDEVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHV 174
+ W+ ++++ + +C+ D IE C + +E CNHAFH
Sbjct: 34 KKWNAVALWAWDIVVDNCAICRNHIMDLCIE---CQANQASATSEECTVAWGVCNHAFHF 90
Query: 175 ACVDRWLKSHSNCPL 189
C+ RWLK+ CPL
Sbjct: 91 HCISRWLKTRQVCPL 105
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 34/75 (45%), Gaps = 3/75 (4%)
Query: 115 EPWHVPTRGLDEVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHV 174
+ W+ ++++ + +C+ D IE C + +E CNHAFH
Sbjct: 15 KKWNAVALWAWDIVVDNCAICRNHIMDLCIE---CQANQASATSEECTVAWGVCNHAFHF 71
Query: 175 ACVDRWLKSHSNCPL 189
C+ RWLK+ CPL
Sbjct: 72 HCISRWLKTRQVCPL 86
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 126 EVLIKSITVCKYKKGDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHS 185
++++ + +C+ D IE C + +E CNHAFH C+ RWLK+
Sbjct: 28 DIVVDNCAICRNHIMDLCIE---CQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQ 84
Query: 186 NCPL 189
CPL
Sbjct: 85 VCPL 88
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 5/52 (9%)
Query: 143 LIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
L + +C +C+ D L+ C H+F C+D+W H NCP+CR +
Sbjct: 12 LTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>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 = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRA 192
C +CL E+ + + C HAF C+ RW++ + CPLC+
Sbjct: 8 CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKV 48
>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 = 34.7 bits (78), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 140 GDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
D L C +C F E +L C H+F C++ W+K CP+CR ++
Sbjct: 58 NDVLENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 140 GDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
D L C +C F E +L C H+F C++ W+K CP+CR ++
Sbjct: 47 NDVLENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 140 GDGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
D L C +C F E +L C H+F C++ W+K CP+CR ++
Sbjct: 47 NDVLENELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 141 DGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSN---CPLCRANLFLI 197
D L E +C +C+ F E++ L C H C+++ L S N CP C + + I
Sbjct: 10 DALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC-SKITRI 68
Query: 198 SASPQL 203
++ QL
Sbjct: 69 TSLTQL 74
>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 = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 19/46 (41%)
Query: 147 TDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRA 192
+ C +CL + + + C H H C + LK CPLC
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51
>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 = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 148 DCSVCL---SEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
C +C+ SE ++ L + +C H F C+ LK+ + CP CR +
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 140 GDGLIEGTDCSVCL---SEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
G G + C +C+ SE ++ L + +C H F C+ LK+ + CP CR +
Sbjct: 4 GSGTVS---CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 140 GDGLIEGTDCSVCL---SEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
G G + C +C+ SE ++ L + +C H F C+ LK+ + CP CR +
Sbjct: 69 GSGTVS---CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.8 bits (68), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 20/47 (42%)
Query: 144 IEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLC 190
+ +C +CL + + + C H H C + LK CPLC
Sbjct: 3 VSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.4 bits (67), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 147 TDCSVCL---SEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
C +C+ SE ++ L + +C H F C+ LK+ + CP CR +
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 149 CSVCL---SEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLCRANL 194
C +C+ SE ++ L + +C H F C+ LK+ + CP CR +
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 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 = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 141 DGLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWL-KSHSNCPLCRANLFL 196
+ + E C +C + + RL P C+ +C+ RWL + + CP CRA L L
Sbjct: 17 ESIAEVFRCFICXEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQL 70
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 10/54 (18%)
Query: 145 EGTDCSVCLSEFEEDESLRLLPKCNHAFHVACV------DRWLKSHSNCPLCRA 192
E C +CL +E S CNH+F AC+ +R NCP+CR
Sbjct: 18 EEVTCPICLELLKEPVS----ADCNHSFCRACITLNYESNRNTDGKGNCPVCRV 67
>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 = 2.5, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLC 190
C +C FE ++P+C+H + C+ ++L + CP C
Sbjct: 25 CGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 7/47 (14%)
Query: 147 TDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRW---LKSHSNCPLC 190
CSVCL +E ++ +C H F AC+ RW L+ CP+C
Sbjct: 16 ASCSVCLEYLKEP----VIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|1F62|A Chain A, Wstf-Phd
Length = 51
Score = 28.1 bits (61), Expect = 5.5, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWL----KSHSNCPLCR 191
C VC + ED+ L L +CN AFH+ C+ L CP C+
Sbjct: 3 CKVCRKK-GEDDKLILCDECNKAFHLFCLRPALYEVPDGEWQCPACQ 48
>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 = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 130 KSITVCKYKKGD--GLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSN- 186
KS CK+ K D L C +C + D+ L + +C+ AFH+ C+D L S +
Sbjct: 172 KSGPSCKHCKDDVNRLCRVCACHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSE 230
Query: 187 ----CPLCR 191
CP CR
Sbjct: 231 DEWYCPECR 239
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLC 190
C +C F + ++ +C H+F C+ R+L++ CP+C
Sbjct: 14 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLC 190
C +C F + ++ +C H+F C+ R+L++ CP+C
Sbjct: 18 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 33/69 (47%), Gaps = 8/69 (11%)
Query: 130 KSITVCKYKKGD--GLIEGTDCSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSN- 186
KS CK+ K D L C +C + D+ L + +C+ AFH+ C+D L S +
Sbjct: 156 KSGPSCKHCKDDVNRLCRVCACHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSE 214
Query: 187 ----CPLCR 191
CP CR
Sbjct: 215 DEWYCPECR 223
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 149 CSVCLSEFEEDESLRLLPKCNHAFHVACVDRWLKSHSNCPLC 190
C +C F + ++ +C H+F C+ R+L++ CP+C
Sbjct: 18 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 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
0.320 0.137 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,519,680
Number of Sequences: 62578
Number of extensions: 414592
Number of successful extensions: 2851
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 2805
Number of HSP's gapped (non-prelim): 62
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)