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= 043654
(390 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 = 57.8 bits (138), Expect = 9e-09, Method: Composition-based stats.
Identities = 23/47 (48%), Positives = 31/47 (65%)
Query: 320 DDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
D C +CLAE + E + +P C H FHA+CVD WL ++TCP+CR
Sbjct: 4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 34/49 (69%), Gaps = 1/49 (2%)
Query: 318 KPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+ + C +C+ +++ ++ L+ +P C H FHA CVD+WL+ N TCP+CR
Sbjct: 20 QSEQTLCVVCMCDFESRQLLRVLP-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 = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
CP+C +Y E+++ +P C H FH C+ WL + +CPVCR S
Sbjct: 18 CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS 61
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/51 (45%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR-NSPARLP 373
C ICL+ + E ++ +P C H FH CVD+WL N CP+CR + A+LP
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQLP 66
>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 = 46.6 bits (109), Expect = 2e-05, Method: Composition-based stats.
Identities = 25/66 (37%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 301 TIESYPKIVLGESRRLPKPDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNA 360
+I++ P+I++ E + CPIC +EY + +P C H FH CV WL+ +
Sbjct: 21 SIDALPEILVTEDHG-AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSG 78
Query: 361 TCPVCR 366
TCPVCR
Sbjct: 79 TCPVCR 84
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVC 365
C +CL ++KP++ L P C H FH C+ +WL + CP+C
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 322 NTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+ C C AE K ++ + EC H FH C+ W++ N CP+C+
Sbjct: 27 DACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 37.4 bits (85), Expect = 0.016, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCRNS 368
CPICL + + + C H H C +E L+ CP+C +S
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRN 367
CPICL K T K EC H F ADC+ LR N CP CR
Sbjct: 57 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRK 98
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRN 367
CPICL K T K EC H F ADC+ LR N CP CR
Sbjct: 56 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRK 97
>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 = 35.4 bits (80), Expect = 0.049, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 20/42 (47%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVC 365
CPICL + + + C H H C +E L+ CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 35.4 bits (80), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
CPICL + P +P C H F C+ W+R N TCP+C+
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 35.0 bits (79), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRL-NATCPVCRN 367
CPICL K T K EC H F ADC+ LR N CP CR
Sbjct: 37 CPICLDMLKNTMTTK---ECLHRFCADCIITALRSGNKECPTCRK 78
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 343 CTHCFHADCVDEWLRLNATCPVCR 366
C H F + C++EW++ CP+CR
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICR 94
>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 = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 4/43 (9%)
Query: 324 CPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
C IC + TL C H F + C++EW++ CP+CR
Sbjct: 67 CIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 105
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 343 CTHCFHADCVDEWLRLNATCPVCR 366
C H F + C++EW++ CP+CR
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICR 94
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 32.0 bits (71), Expect = 0.62, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 323 TCPICLAEYKP---KETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+CPIC+ Y L EC H F + C+ + L+ TCP CR
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.6 bits (70), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 323 TCPICLAEYKP---KETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+CPIC+ Y L EC H F + C+ + L+ TCP CR
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
Score = 31.6 bits (70), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 323 TCPICLAEYKP---KETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+CPIC+ Y L EC H F + C+ + L+ TCP CR
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
>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 = 31.6 bits (70), Expect = 0.81, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 31.6 bits (70), Expect = 0.87, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.6 bits (70), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 323 TCPICLAEYKP---KETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+CPIC+ Y L EC H F + C+ + L+ TCP CR
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>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 = 31.2 bits (69), Expect = 0.93, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 31.2 bits (69), Expect = 0.93, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 6/57 (10%)
Query: 311 GESRRLPK-PDDNTCPICLAEYKPKETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
G S R+ + D+ C IC+ I C H F C+D+W + CP+CR
Sbjct: 4 GSSGRVKQLTDEEECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 323 TCPICLAEYKP---KETLKTIPECTHCFHADCVDEWLRLNATCPVCR 366
+CPIC+ Y L EC H F + C+ + L+ TCP CR
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>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 = 1.0, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 343 CTHCFHADCVDEWLRLNATCPV 364
C H FH C+ WL+ CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 339 TIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPL 375
TI EC H F C+ +L + CP+C + PL
Sbjct: 26 TIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPL 62
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 339 TIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPL 375
TI EC H F C+ +L + CP+C + PL
Sbjct: 30 TIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPL 66
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 30.4 bits (67), Expect = 1.6, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 339 TIPECTHCFHADCVDEWLRLNATCPVCRNSPARLPPL 375
TI EC H F C+ +L + CP+C + PL
Sbjct: 30 TIIECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPL 66
>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl
Phosphate
pdb|3TTD|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Cpp And
Carbamoyl Phosphate
Length = 658
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 319 PDDNTCPICLAEYK-PKETLKTIP--ECTHC 346
PD TCP CLAE P E P CTHC
Sbjct: 15 PDAATCPACLAEMNTPGERRYRYPFINCTHC 45
>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf
pdb|3TSU|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Pnp And
Carbamoyl Phosphate
pdb|3TTC|A Chain A, Crystal Structure Of E. Coli Hypf With Adp And Carbamoyl
Phosphate
pdb|3TTF|A Chain A, Crystal Structure Of E. Coli Hypf With Amp And Carbamoyl
Phosphate
Length = 657
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 16/31 (51%), Gaps = 3/31 (9%)
Query: 319 PDDNTCPICLAEYK-PKETLKTIP--ECTHC 346
PD TCP CLAE P E P CTHC
Sbjct: 15 PDAATCPACLAEMNTPGERRYRYPFINCTHC 45
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
0.321 0.136 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,739,569
Number of Sequences: 62578
Number of extensions: 430797
Number of successful extensions: 797
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 762
Number of HSP's gapped (non-prelim): 38
length of query: 390
length of database: 14,973,337
effective HSP length: 101
effective length of query: 289
effective length of database: 8,652,959
effective search space: 2500705151
effective search space used: 2500705151
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)