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= 018299
(358 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 70.1 bits (170), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 37/55 (67%)
Query: 236 MESHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
E H+ + CPVCKE++ +G R+L C H++H CIVPWL H+SCPVCR +
Sbjct: 8 TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>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 = 58.5 bits (140), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 40/74 (54%), Gaps = 2/74 (2%)
Query: 220 PPVPEAAIQAIPTVKIMESH--LANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWL 277
PP + +I A+P + + E H + + CP+C E+ G A EL C H +H C+ WL
Sbjct: 15 PPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWL 74
Query: 278 RLHNSCPVCRHEVP 291
+ +CPVCR P
Sbjct: 75 QKSGTCPVCRCMFP 88
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 48.1 bits (113), Expect = 7e-06, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 246 CPVCKEEFKVGGEARELA-CKHIYHSECIVPWLRLHNSCPVCRHEV 290
C VC E + G EAR L C H +H+EC+ WL H++CP+CR V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 45.1 bits (105), Expect = 6e-05, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 25/45 (55%)
Query: 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
C VC E+FK E CKH +H +C++ WL + CP+C V
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 62
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 31/52 (59%)
Query: 238 SHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHE 289
+H + T C VC +F+ R L C H +H++C+ WL+ + +CP+CR +
Sbjct: 18 NHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRAD 69
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 236 MESHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291
M L N+ C +C E F EA L C H + S CI W++ CP+CR ++
Sbjct: 46 MNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>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 = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 236 MESHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291
M L N+ C +C E F EA L C H + S CI W++ CP+CR ++
Sbjct: 57 MNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 236 MESHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291
M L N+ C +C E F EA L C H + S CI W++ CP+CR ++
Sbjct: 46 MNDVLENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
C +C + G + R L C H++H C+ WL + CP+CR ++
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.9 bits (76), Expect = 0.14, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 245 TCPVCKEEF----KVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
+CP+C + + + G C H++ S+C+ L+ N+CP CR ++
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 33.5 bits (75), Expect = 0.18, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 245 TCPVCKEEF----KVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
+CP+C + + + G C H++ S+C+ L+ N+CP CR ++
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 33.5 bits (75), Expect = 0.20, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 4/50 (8%)
Query: 245 TCPVCKEEF----KVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
+CP+C + + + G C H++ S+C+ L+ N+CP CR ++
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 33.1 bits (74), Expect = 0.24, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 34/67 (50%), Gaps = 18/67 (26%)
Query: 229 AIPTVKIMESHLANDTTCPVCKEEFK------VGGEARELACKHIYHSECIVPWLRLHNS 282
AI V++M++ C C+ E K V GE C H +H+ C+ W++ +N
Sbjct: 19 AICRVQVMDA-------CLRCQAENKQEDCVVVWGE-----CNHSFHNCCMSLWVKQNNR 66
Query: 283 CPVCRHE 289
CP+C+ +
Sbjct: 67 CPLCQQD 73
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 31.6 bits (70), Expect = 0.68, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 238 SHLANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNS-CPVCRH 288
+H +C +C+ + + E +CKH++ CI+ L++ S CP CR+
Sbjct: 18 AHFVKSISCQICEH---ILADPVETSCKHLFCRICILRCLKVMGSYCPSCRY 66
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 241 ANDTTCPVCKEEF----KVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
+ +CP+C + + + G C H++ S+C+ L+ N+CP CR ++
Sbjct: 5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 241 ANDTTCPVCKEEF----KVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEV 290
+ +CP+C + + + G C H++ S+C+ L+ N+CP CR ++
Sbjct: 70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNRE 109
>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 = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNRE 90
>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 = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 246 CPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCR 287
CP+C E+ + L C H + CI W+R + +CP+C+
Sbjct: 8 CPICLED--PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNRE 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 = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNRE 98
>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 = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNRE 82
>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 = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNRE 98
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 264 CKHIYHSECIVPWLRLHNSCPVCRHE 289
C H +H CI WL+ CP+ E
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNRE 92
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 17/29 (58%)
Query: 262 LACKHIYHSECIVPWLRLHNSCPVCRHEV 290
L C H + +CI W H +CP+CR ++
Sbjct: 30 LPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>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 = 28.9 bits (63), Expect = 4.5, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 1/47 (2%)
Query: 241 ANDTTCPVCKEEFKVGGE-ARELACKHIYHSECIVPWLRLHNSCPVC 286
+ + CP+C E+ A L C H+ H C L+ CP+C
Sbjct: 3 SGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 28.1 bits (61), Expect = 8.4, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 21/51 (41%)
Query: 241 ANDTTCPVCKEEFKVGGEARELACKHIYHSECIVPWLRLHNSCPVCRHEVP 291
A T P C + L CKH++ C+ L C +CR E+P
Sbjct: 10 APSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEIP 60
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 0.140 0.458
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,708,212
Number of Sequences: 62578
Number of extensions: 366989
Number of successful extensions: 625
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 592
Number of HSP's gapped (non-prelim): 38
length of query: 358
length of database: 14,973,337
effective HSP length: 100
effective length of query: 258
effective length of database: 8,715,537
effective search space: 2248608546
effective search space used: 2248608546
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: 52 (24.6 bits)