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= 014400
(425 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 20/40 (50%), Positives = 24/40 (60%)
Query: 282 SLFLEVLQVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 321
S+ E VR LPC H FH C+D+WL N KCP CR +
Sbjct: 22 SILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 290 VRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPN 324
+R LPC H FH +C+D+WL+ N CP CR P+
Sbjct: 39 LRVLPCNHEFHAKCVDKWLKANRTCPICRADSGPS 73
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 17/32 (53%), Positives = 19/32 (59%)
Query: 290 VRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 321
VR LPC H FH CI WL + CP CR S+
Sbjct: 31 VRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 293 LPCAHNFHIECIDEWLRLNVKCPRCR 318
L CAH+F CI+EW++ ++CP CR
Sbjct: 69 LNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.004, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 293 LPCAHNFHIECIDEWLRLNVKCPRCR 318
L CAH+F CI+EW++ ++CP CR
Sbjct: 69 LNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 14/26 (53%), Positives = 18/26 (69%)
Query: 293 LPCAHNFHIECIDEWLRLNVKCPRCR 318
LPCAH+F +CID+W + CP CR
Sbjct: 30 LPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 289 QVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV 321
+ R LP C H FH EC+D WL + CP CR +V
Sbjct: 20 EARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>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 = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 19/33 (57%)
Query: 293 LPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNL 325
LPC H FH C+ WL+ + CP CRC P L
Sbjct: 59 LPCHHYFHKPCVSIWLQKSGTCPVCRCMFPPPL 91
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 36.2 bits (82), Expect = 0.032, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 294 PCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALS 331
PC H FH +C+ +WL + CP C P L L+ LS
Sbjct: 35 PCKHAFHRKCLIKWLEVRKVCPLCN---MPVLQLAQLS 69
>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 = 35.8 bits (81), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 19/26 (73%)
Query: 293 LPCAHNFHIECIDEWLRLNVKCPRCR 318
L CAH+F CI+EW++ ++CP CR
Sbjct: 80 LNCAHSFCSYCINEWMKRKIECPICR 105
>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 = 0.30, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 292 GLPCAHNFHIECIDEWLRLNVKCPRCR 318
LPC H F CI W+R N CP C+
Sbjct: 21 ALPCLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 293 LPCAHNFHIECIDEWLRLNVKCPRC 317
LPC H H C +E L+ +CP C
Sbjct: 25 LPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 295 CAHNFHIECIDEWLRLNVKCPRCR 318
C H+FH C+ W++ N +CP C+
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 67 CNHAFHFHCISRWLKTRQVCP 87
>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 = 1.9, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 84 CNHAFHFHCISRWLKTRQVCP 104
>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 = 30.4 bits (67), Expect = 2.0, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 30.4 bits (67), Expect = 2.0, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 275 LKEHMSTSLFLEVLQVR-GLPCAHNFHIECIDEWLRLNV---KCPRCRCSVFPN 324
L+E + + L++LQ + C HNF ++CI + + KCP C+ SV N
Sbjct: 17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN 70
>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 = 2.0, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 75 CNHAFHFHCISRWLKTRQVCP 95
>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 = 30.4 bits (67), Expect = 2.1, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>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 = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 65 CNHAFHFHCISRWLKTRQVCP 85
>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 = 2.7, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 295 CAHNFHIECIDEWLRLNVKCP 315
C H FH CI WL+ CP
Sbjct: 57 CNHAFHFHCISRWLKTRQVCP 77
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
0.327 0.140 0.467
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,101,991
Number of Sequences: 62578
Number of extensions: 452825
Number of successful extensions: 1068
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1042
Number of HSP's gapped (non-prelim): 29
length of query: 425
length of database: 14,973,337
effective HSP length: 102
effective length of query: 323
effective length of database: 8,590,381
effective search space: 2774693063
effective search space used: 2774693063
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 53 (25.0 bits)