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= 026797
(233 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 = 63.9 bits (154), Expect = 8e-11, Method: Composition-based stats.
Identities = 24/44 (54%), Positives = 31/44 (70%)
Query: 131 ECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
EC +CL++ GE R LP+C HGFH C+D WL S+S+CP CR
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 33/43 (76%), Gaps = 1/43 (2%)
Query: 132 CVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
CV+C+ DF + +R+LP CNH FH +C+D+WL++N +CP CR
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 127 GLDAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCRHCLI 178
G EC +C D+ALGE VR LP CNH FH CI WL + SCP CR L
Sbjct: 13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLT 63
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/44 (54%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 131 ECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
+C ICLS GE VR LP C H FH C+D+WL +N CP CR
Sbjct: 16 KCTICLSILEEGEDVRRLP-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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 39/72 (54%), Gaps = 1/72 (1%)
Query: 103 NKGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALGERVRLLPKCNHGFHVRCIDR 162
N +K+++ A P + + + G + C IC S++ G+ LP C+H FH C+
Sbjct: 14 NPPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSI 72
Query: 163 WLRSNSSCPKCR 174
WL+ + +CP CR
Sbjct: 73 WLQKSGTCPVCR 84
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 1/54 (1%)
Query: 120 SAELKLPGLDAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKC 173
S ++K L C +CL DF + + + P C H FH +C+ +WL CP C
Sbjct: 6 SGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 93 GTNSSATKAIN--KGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALG---ERVRL 147
GTNS A K K N AL A+ +V + + + C+ C ++ A E
Sbjct: 10 GTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIXDLCIECQANQASATSEECTVA 69
Query: 148 LPKCNHGFHVRCIDRWLRSNSSCP 171
CNH FH CI RWL++ CP
Sbjct: 70 WGVCNHAFHFHCISRWLKTRQVCP 93
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 93 GTNSSATKAIN--KGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALG---ERVRL 147
GTNS A K K N AL A+ +V + + + C+ C ++ A E
Sbjct: 12 GTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVA 71
Query: 148 LPKCNHGFHVRCIDRWLRSNSSCP 171
CNH FH CI RWL++ CP
Sbjct: 72 WGVCNHAFHFHCISRWLKTRQVCP 95
>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 = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 93 GTNSSATKAIN--KGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALG---ERVRL 147
GTNS A K K N AL A+ +V + + + C+ C ++ A E
Sbjct: 2 GTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVA 61
Query: 148 LPKCNHGFHVRCIDRWLRSNSSCP 171
CNH FH CI RWL++ CP
Sbjct: 62 WGVCNHAFHFHCISRWLKTRQVCP 85
>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 = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 93 GTNSSATKAIN--KGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALG---ERVRL 147
GTNS A K K N AL A+ +V + + + C+ C ++ A E
Sbjct: 10 GTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVA 69
Query: 148 LPKCNHGFHVRCIDRWLRSNSSCP 171
CNH FH CI RWL++ CP
Sbjct: 70 WGVCNHAFHFHCISRWLKTRQVCP 93
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 93 GTNSSATKAIN--KGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALG---ERVRL 147
GTNS A K K N AL A+ +V + + + C+ C ++ A E
Sbjct: 21 GTNSGAGKKRFEVKKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVA 80
Query: 148 LPKCNHGFHVRCIDRWLRSNSSCP 171
CNH FH CI RWL++ CP
Sbjct: 81 WGVCNHAFHFHCISRWLKTRQVCP 104
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 37.0 bits (84), Expect = 0.009, Method: Composition-based stats.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 129 DAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
+ EC IC+ R L+ C H F +CID+W + +CP CR
Sbjct: 15 EEECCICMDG-----RADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 32/71 (45%), Gaps = 3/71 (4%)
Query: 104 KGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALG---ERVRLLPKCNHGFHVRCI 160
K N AL A+ +V + + + C+ C ++ A E CNH FH CI
Sbjct: 7 KKWNAVALWAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCI 66
Query: 161 DRWLRSNSSCP 171
RWL++ CP
Sbjct: 67 SRWLKTRQVCP 77
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 151 CNHGFHVRCIDRWLRSNSSCP 171
CNH FH CI RWL++ CP
Sbjct: 67 CNHAFHFHCISRWLKTRQVCP 87
>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 = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 132 CVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
C ICL D + C H F CI RW+R N +CP C+
Sbjct: 8 CPICLED---PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 34.3 bits (77), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 124 KLPGLDAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCRH 175
++ +DA C+ C ++ + V + +CNH FH C+ W++ N+ CP C+
Sbjct: 22 RVQVMDA-CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>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 = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 129 DAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
+ +C+IC F E V L C H F CI+ W++ CP CR
Sbjct: 64 ELQCIICSEYFI--EAVTL--NCAHSFCSYCINEWMKRKIECPICR 105
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 129 DAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
+ +C+IC F E V L C H F CI+ W++ CP CR
Sbjct: 53 ELQCIICSEYFI--EAVTL--NCAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 4/46 (8%)
Query: 129 DAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
+ +C+IC F E V L C H F CI+ W++ CP CR
Sbjct: 53 ELQCIICSEYFI--EAVTL--NCAHSFCSYCINEWMKRKIECPICR 94
>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 = 30.4 bits (67), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 3/42 (7%)
Query: 132 CVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKC 173
C IC F + ++P+C+H + CI ++L + CP C
Sbjct: 25 CGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>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 = 1.0, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 18/44 (40%)
Query: 132 CVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCRH 175
C ICL D V + C H H C + L+ CP C H
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMH 51
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 15/59 (25%)
Query: 116 VVKYSAELKLPGLDAECVICLSDFALGER--------------VRLLPKCNHGFHVRCI 160
+ KY+ ELK+ + +C+IC+ A+ V L KC+H FH+ C+
Sbjct: 13 IRKYTEELKVA-PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCL 70
>pdb|3D4J|A Chain A, Crystal Structure Of Human Mevalonate Diphosphate
Decarboxylase
pdb|3D4J|B Chain B, Crystal Structure Of Human Mevalonate Diphosphate
Decarboxylase
Length = 400
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/54 (24%), Positives = 28/54 (51%)
Query: 108 KKALKAFPVVKYSAELKLPGLDAECVICLSDFALGERVRLLPKCNHGFHVRCID 161
+ +++ P++++ AE +P AE C+ + +L K ++ FH C+D
Sbjct: 216 RASVETSPLLRFRAESVVPARMAEMARCIRERDFPSFAQLTMKDSNQFHATCLD 269
>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 = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 18/45 (40%)
Query: 129 DAECVICLSDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKC 173
+ C ICL D V + C H H C + L+ CP C
Sbjct: 5 SSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 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 = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 126 PGLDAECVICLSDFA---LGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
P C IC+ ++ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 126 PGLDAECVICLSDFA---LGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
P C IC+ ++ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 27.3 bits (59), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 127 GLDAECVICL---SDFALGERVRLLPKCNHGFHVRCIDRWLRSNSSCPKCR 174
G C IC+ S+ R+ + +C H F +C+ L++ ++CP CR
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 6/80 (7%)
Query: 95 NSSATKAINKGINKKALKAFPVVKYSAELKLPGLDAECVICLSDFALGERVRLLPKCNHG 154
N++ K IN K + P+ S + P C+ S+ R+ + +C H
Sbjct: 47 NANTCPTCRKKINHK--RYHPIYIGSGTVSCP----ICMDGYSEIVQNGRLIVSTECGHV 100
Query: 155 FHVRCIDRWLRSNSSCPKCR 174
F +C+ L++ ++CP CR
Sbjct: 101 FCSQCLRDSLKNANTCPTCR 120
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
0.323 0.138 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,664,278
Number of Sequences: 62578
Number of extensions: 189034
Number of successful extensions: 290
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 253
Number of HSP's gapped (non-prelim): 43
length of query: 233
length of database: 14,973,337
effective HSP length: 96
effective length of query: 137
effective length of database: 8,965,849
effective search space: 1228321313
effective search space used: 1228321313
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)