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= 021673
(309 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 = 55.8 bits (133), Expect = 3e-08, Method: Composition-based stats.
Identities = 24/44 (54%), Positives = 30/44 (68%), Gaps = 1/44 (2%)
Query: 262 ECCICLAKYKEKEEVRKLP-CSHMFHLKCVDQWLRILSCCPLCK 304
EC +CLA+ ++ EE R LP C H FH +CVD WL S CPLC+
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 34/47 (72%)
Query: 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308
+C ICL+ +E E+VR+LPC H+FH CVDQWL CP+C+ ++E
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIE 62
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 15/81 (18%)
Query: 229 ASDDQISRLPSWRYKRVDSNLEAGNSAPANEDPE---CCICLAKYKEKEEVRKLPCSHMF 285
S +LPS+R+ P N E C +C+ ++ ++ +R LPC+H F
Sbjct: 1 GSSGSSGQLPSYRFN------------PNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEF 48
Query: 286 HLKCVDQWLRILSCCPLCKQE 306
H KCVD+WL+ CP+C+ +
Sbjct: 49 HAKCVDKWLKANRTCPICRAD 69
>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 = 1e-07, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 28/46 (60%)
Query: 262 ECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQEL 307
EC +C Y E VR+LPC+H+FH C+ WL CP+C++ L
Sbjct: 17 ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 26/41 (63%)
Query: 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLC 303
C +CL +K ++E+ PC H FH KC+ +WL + CPLC
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 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 = 45.4 bits (106), Expect = 4e-05, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 25/42 (59%)
Query: 263 CCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCK 304
C IC ++Y + + +LPC H FH CV WL+ CP+C+
Sbjct: 43 CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 247 SNLEAGNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQE 306
S+ +G ++ ECCIC+ + LPC+H F KC+D+W CP+C+ +
Sbjct: 2 SSGSSGRVKQLTDEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQ 57
Query: 307 L 307
+
Sbjct: 58 M 58
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 36.6 bits (83), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 246 DSNLEAGNSAPANEDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSCCPLCKQ 305
S+ +GN+AP+ PEC ICL LPC H+F CV + C LC+Q
Sbjct: 1 GSSGSSGNTAPSLTVPECAICLQTCVHP---VSLPCKHVFCYLCVKGASWLGKRCALCRQ 57
Query: 306 EL 307
E+
Sbjct: 58 EI 59
>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 = 35.0 bits (79), Expect = 0.048, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNREWE 92
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 35.0 bits (79), Expect = 0.058, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNREWE 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 = 34.7 bits (78), Expect = 0.068, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNREWE 84
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNREWE 111
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNREWE 102
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNREWE 100
>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 = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 281 CSHMFHLKCVDQWLRILSCCPLCKQELE 308
C+H FH C+ +WL+ CPL +E E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNREWE 100
>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 = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 279 LPCSHMFHLKCVDQWLRILSCCPLCKQELE 308
LPC H F C+ +W+R CPLCK +E
Sbjct: 22 LPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51
>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 = 32.7 bits (73), Expect = 0.24, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 263 CCICLAKYKEKEEVRK-LPCSHMFHLKCVDQWLRILSCCPLC 303
C ICL V LPC H+ H C ++ L+ CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.7 bits (73), Expect = 0.29, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 263 CCICLAKYKEKEEVRK-LPCSHMFHLKCVDQWLRILSCCPLC 303
C ICL V LPC H+ H C ++ L+ CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 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 = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 263 CCICLAKYKEKEEVRKL----PCSHMFHLKCVDQWLRILSCCPLCKQEL 307
C IC+ Y E + +L C H+F +C+ L+ + CP C++++
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 263 CCICLAKYKEKEEVRKL----PCSHMFHLKCVDQWLRILSCCPLCKQEL 307
C IC+ Y E + +L C H+F +C+ L+ + CP C++++
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.6 bits (65), Expect = 2.3, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 263 CCICLAKYKEKEEVRKL----PCSHMFHLKCVDQWLRILSCCPLCKQEL 307
C IC+ Y E + +L C H+F +C+ L+ + CP C++++
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 9/29 (31%), Positives = 20/29 (68%)
Query: 279 LPCSHMFHLKCVDQWLRILSCCPLCKQEL 307
L C+H F C+++W++ CP+C++++
Sbjct: 69 LNCAHSFCSYCINEWMKRKIECPICRKDI 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 = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 22/34 (64%)
Query: 275 EVRKLPCSHMFHLKCVDQWLRILSCCPLCKQELE 308
E L C+H F C+++W++ CP+C+++++
Sbjct: 76 EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 9/29 (31%), Positives = 20/29 (68%)
Query: 279 LPCSHMFHLKCVDQWLRILSCCPLCKQEL 307
L C+H F C+++W++ CP+C++++
Sbjct: 69 LNCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 28.1 bits (61), Expect = 6.1, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 8/55 (14%)
Query: 259 EDPECCICLAKYKEKEEVRKLPCSHMFHLKCVDQWLRILSC----CPLCKQELER 309
E+ C ICL ++ + C H F LKC+ Q + SC CPLCK + +
Sbjct: 19 EEVICPICLDILQKPVTI---DCGHNFCLKCITQ-IGETSCGFFKCPLCKTSVRK 69
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 0.135 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,418,293
Number of Sequences: 62578
Number of extensions: 244818
Number of successful extensions: 425
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 32
length of query: 309
length of database: 14,973,337
effective HSP length: 99
effective length of query: 210
effective length of database: 8,778,115
effective search space: 1843404150
effective search space used: 1843404150
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)