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= 037216
(379 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 = 65.9 bits (159), Expect = 4e-11, Method: Composition-based stats.
Identities = 25/50 (50%), Positives = 34/50 (68%)
Query: 174 GGDCAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPII 223
G +CA+CL + E ++ R LP C H FHA C+D WL S+ TCPLCR ++
Sbjct: 5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 59.3 bits (142), Expect = 4e-09, Method: Composition-based stats.
Identities = 23/47 (48%), Positives = 31/47 (65%), Gaps = 1/47 (2%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPII 223
CA+CL F+P D+L + P C HAFH +C+ WLE CPLC P++
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPVL 63
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 58.2 bits (139), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 23/44 (52%), Positives = 32/44 (72%), Gaps = 1/44 (2%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRS 220
C +C+ FE LR+LP C H FHA+C+D WL++N TCP+CR+
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 52.0 bits (123), Expect = 6e-07, Method: Composition-based stats.
Identities = 23/48 (47%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPIIA 224
C ICL E + +R LP C H FH C+D WL +N CP+CR I A
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEA 63
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 45.1 bits (105), Expect = 7e-05, Method: Composition-based stats.
Identities = 20/54 (37%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 174 GGDCAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPIIATET 227
G +C +C + + +R LP C H FH CI WLE + +CP+CR + T
Sbjct: 15 GLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT 67
>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 = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCR 219
C IC ++ D LP C H FH C+ WL+ + TCP+CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPI 222
C ICL +P + LP C HAF CI W+ N TCPLC+ P+
Sbjct: 8 CPICLE--DPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 196 CCHAFHARCIDTWLESNLTCPLCRSPI 222
C H+F + CI+ W++ + CP+CR I
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 196 CCHAFHARCIDTWLESNLTCPLCRSPI 222
C H+F + CI+ W++ + CP+CR I
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICRKDI 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 = 36.2 bits (82), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 196 CCHAFHARCIDTWLESNLTCPLCRSPI 222
C H+F + CI+ W++ + CP+CR I
Sbjct: 82 CAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 35.8 bits (81), Expect = 0.044, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 23/43 (53%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCR 219
C C + + D + + C H+FH C+ W++ N CPLC+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 35.8 bits (81), Expect = 0.045, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 83 VCNHAFHFHCISRWLKTRQVCPL 105
>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 = 35.4 bits (80), Expect = 0.049, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 64 VCNHAFHFHCISRWLKTRQVCPL 86
>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 = 35.4 bits (80), Expect = 0.051, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 56 VCNHAFHFHCISRWLKTRQVCPL 78
>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 = 35.4 bits (80), Expect = 0.059, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 74 VCNHAFHFHCISRWLKTRQVCPL 96
>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 = 35.0 bits (79), Expect = 0.061, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 72 VCNHAFHFHCISRWLKTRQVCPL 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 = 35.0 bits (79), Expect = 0.063, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 72 VCNHAFHFHCISRWLKTRQVCPL 94
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 34.7 bits (78), Expect = 0.083, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 195 LCCHAFHARCIDTWLESNLTCPL 217
+C HAFH CI WL++ CPL
Sbjct: 66 VCNHAFHFHCISRWLKTRQVCPL 88
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 5/44 (11%)
Query: 176 DCAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCR 219
+C IC+ + L+ C H+F +CID W + + CP+CR
Sbjct: 17 ECCICM-----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 32.3 bits (72), Expect = 0.47, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 177 CAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPIIATETDV 229
C IC FE + ++P C H + + CI +L CP C + TE D+
Sbjct: 25 CGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC--CVTVTEPDL 72
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 30.0 bits (66), Expect = 2.5, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 196 CCHAFHARCIDTWLESNLTCPLC 218
C H+F CI +LE++ CP+C
Sbjct: 30 CLHSFCKTCIVRYLETSKYCPIC 52
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 29.6 bits (65), Expect = 3.1, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 196 CCHAFHARCIDTWLESNLTCPLC 218
C H+F CI +LE++ CP+C
Sbjct: 34 CLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.6 bits (65), Expect = 3.2, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 196 CCHAFHARCIDTWLESNLTCPLC 218
C H+F CI +LE++ CP+C
Sbjct: 34 CLHSFCKTCIVRYLETSKYCPIC 56
>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 = 29.3 bits (64), Expect = 3.4, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 177 CAICLFKFEP---HDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPI 222
C IC+ + + +L + C H F ++C+ L++ TCP CR I
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.3 bits (64), Expect = 3.4, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 177 CAICLFKFEP---HDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPI 222
C IC+ + + +L + C H F ++C+ L++ TCP CR I
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 = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 177 CAICLFKFEP---HDQLRLLPLCCHAFHARCIDTWLESNLTCPLCRSPI 222
C IC+ + + +L + C H F ++C+ L++ TCP CR I
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.9 bits (63), Expect = 4.5, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 18/43 (41%)
Query: 176 DCAICLFKFEPHDQLRLLPLCCHAFHARCIDTWLESNLTCPLC 218
+C ICL + + C H H C + L+ CPLC
Sbjct: 7 NCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2F2F|B Chain B, Crystal Structure Of Cytolethal Distending Toxin (Cdt)
From Actinobacillus Actinomycetemcomitans
pdb|2F2F|E Chain E, Crystal Structure Of Cytolethal Distending Toxin (Cdt)
From Actinobacillus Actinomycetemcomitans
Length = 283
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 223 IATETDVMKAIHASSGGGSDSFRLEIGSISRRQAGNEPPGEPQRRSYS---LGSFD 275
I TDV +HA + GGSD+ L I +I P P+RR YS +G F+
Sbjct: 149 IRIGTDVFFTVHALATGGSDAVSL-IRNIF--TTFTSSPSSPERRGYSWMVVGDFN 201
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 0.133 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,232,847
Number of Sequences: 62578
Number of extensions: 262045
Number of successful extensions: 497
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 35
length of query: 379
length of database: 14,973,337
effective HSP length: 100
effective length of query: 279
effective length of database: 8,715,537
effective search space: 2431634823
effective search space used: 2431634823
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)