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= 013215
(447 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 34/50 (68%)
Query: 357 EDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEVG 406
E +C +C+ + + LR LPC+H FH CVDKWLK N +CP+C+++ G
Sbjct: 22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADSG 71
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 57.8 bits (138), Expect = 1e-08, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 30/45 (66%)
Query: 361 CCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
C ICL+ +++R LPC H FH+ CVD+WL N CP+C+ ++
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 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 = 57.0 bits (136), Expect = 2e-08, Method: Composition-based stats.
Identities = 21/47 (44%), Positives = 31/47 (65%)
Query: 356 GEDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCK 402
G++ C IC ++Y D ELPC H+FHK CV WL+ + +CP+C+
Sbjct: 38 GQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 25/61 (40%), Positives = 39/61 (63%), Gaps = 3/61 (4%)
Query: 345 AAGTEKERVISGEDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSE 404
++GTE E V SG + C +C YA + +R+LPC+H FH C+ WL+ + SCP+C+
Sbjct: 5 SSGTE-EHVGSGLE--CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKS 61
Query: 405 V 405
+
Sbjct: 62 L 62
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 52.8 bits (125), Expect = 4e-07, Method: Composition-based stats.
Identities = 20/46 (43%), Positives = 27/46 (58%)
Query: 360 VCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
+C +CL + DEL PC H FH+ C+ KWL++ CPLC V
Sbjct: 17 LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPV 62
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 31/46 (67%), Gaps = 1/46 (2%)
Query: 361 CCICLAKYANNDELRELP-CSHFFHKDCVDKWLKINASCPLCKSEV 405
C +CLA+ + +E R LP C H FH +CVD WL +++CPLC+ V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 30/49 (61%), Gaps = 4/49 (8%)
Query: 357 EDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
++ CCIC+ A+ LPC+H F + C+DKW + +CP+C+ ++
Sbjct: 14 DEEECCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPICRLQM 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 = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 361 CCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEVGDTV 409
C ICL +N LPC H F C+ +W++ N +CPLCK V V
Sbjct: 8 CPICLEDPSNYS--MALPCLHAFCYVCITRWIRQNPTCPLCKVPVESVV 54
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 349 EKERVISG-----EDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKS 403
+KE V+S E+ + CI ++Y E L C+H F C+++W+K CP+C+
Sbjct: 38 QKEEVLSHMNDVLENELQCIICSEYF--IEAVTLNCAHSFCSYCINEWMKRKIECPICRK 95
Query: 404 EV 405
++
Sbjct: 96 DI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 7/62 (11%)
Query: 349 EKERVISG-----EDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKS 403
+KE V+S E+ + CI ++Y E L C+H F C+++W+K CP+C+
Sbjct: 38 QKEEVLSHMNDVLENELQCIICSEYF--IEAVTLNCAHSFCSYCINEWMKRKIECPICRK 95
Query: 404 EV 405
++
Sbjct: 96 DI 97
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 35.0 bits (79), Expect = 0.087, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 379 CSHFFHKDCVDKWLKINASCPLCKSE 404
C+H FH C+ W+K N CPLC+ +
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQQD 73
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 35.0 bits (79), Expect = 0.089, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 361 CCICLAKYANNDELRE-LPCSHFFHKDCVDKWLKINASCPLC 401
C ICL + + LPC H H+ C ++ LK CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 7/63 (11%)
Query: 349 EKERVISG-----EDAVCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKS 403
+KE V+S E+ + CI ++Y E L C+H F C+++W+K CP+C+
Sbjct: 49 QKEEVLSHMNDVLENELQCIICSEYF--IEAVTLNCAHSFCSYCINEWMKRKIECPICRK 106
Query: 404 EVG 406
++
Sbjct: 107 DIK 109
>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 = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 377 LPCSHFFHKDCVDKWLKINASCPLC 401
LPC H H+ C ++ LK CPLC
Sbjct: 25 LPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 33.5 bits (75), Expect = 0.22, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 379 CSHFFHKDCVDKWLKINASCPLCKSE 404
C+H FH C+ +WLK CPL E
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNRE 109
>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 = 33.5 bits (75), Expect = 0.27, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 379 CSHFFHKDCVDKWLKINASCPLCKSE 404
C+H FH C+ +WLK CPL E
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNRE 82
>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 = 33.5 bits (75), Expect = 0.27, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 379 CSHFFHKDCVDKWLKINASCPLCKSE 404
C+H FH C+ +WLK CPL E
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNRE 90
>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 = 33.1 bits (74), Expect = 0.30, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 379 CSHFFHKDCVDKWLKINASCPLCKSE 404
C+H FH C+ +WLK CPL E
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNRE 100
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 33.1 bits (74), Expect = 0.32, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 379 CSHFFHKDCVDKWLKINASCPLCKSE 404
C+H FH C+ +WLK CPL E
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNRE 92
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 32.7 bits (73), Expect = 0.42, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 360 VCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEVGDT 408
+C +C + + + E C H F K C+ ++L+ + CP+C +V T
Sbjct: 13 MCVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHKT 59
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 32.3 bits (72), Expect = 0.52, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 360 VCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEVGDT 408
+C +C + + + E C H F K C+ ++L+ + CP+C +V T
Sbjct: 17 MCVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHKT 63
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 32.3 bits (72), Expect = 0.54, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 360 VCCICLAKYANNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEVGDT 408
+C +C + + + E C H F K C+ ++L+ + CP+C +V T
Sbjct: 17 MCVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHKT 63
>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 = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 379 CSHFFHKDCVDKWLKINASCPL 400
C+H FH C+ +WLK CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 379 CSHFFHKDCVDKWLKINASCPL 400
C+H FH C+ +WLK CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 32/66 (48%), Gaps = 16/66 (24%)
Query: 349 EKERVISGEDAV--CCICLAKYANNDELRELP----CSHFFHKDCVDKWL---KINASCP 399
E + VI+ + C ICL EL + P C H F K C+ K L K + CP
Sbjct: 10 EVQNVINAMQKILECPICL-------ELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCP 62
Query: 400 LCKSEV 405
LCK+++
Sbjct: 63 LCKNDI 68
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.9 bits (63), Expect = 6.6, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 361 CCICLAKYA----NNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
C IC+ Y+ N + C H F C+ LK +CP C+ ++
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.5 bits (62), Expect = 7.2, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 361 CCICLAKYA----NNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
C IC+ Y+ N + C H F C+ LK +CP C+ ++
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 28.5 bits (62), Expect = 7.2, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 361 CCICLAKYA----NNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
C IC+ Y+ N + C H F C+ LK +CP C+ ++
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>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 = 28.5 bits (62), Expect = 7.7, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 361 CCICLAKYA----NNDELRELPCSHFFHKDCVDKWLKINASCPLCKSEV 405
C IC+ Y+ N + C H F C+ LK +CP C+ ++
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
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 0.134 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,806,760
Number of Sequences: 62578
Number of extensions: 420510
Number of successful extensions: 703
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 676
Number of HSP's gapped (non-prelim): 35
length of query: 447
length of database: 14,973,337
effective HSP length: 102
effective length of query: 345
effective length of database: 8,590,381
effective search space: 2963681445
effective search space used: 2963681445
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: 53 (25.0 bits)