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= 009501
(533 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 54.3 bits (129), Expect = 2e-07, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 29/46 (63%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSEAL 529
C +C ED++ +++G C H +H +CL KWL ++ VCP+C L
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 53.5 bits (127), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 33/55 (60%)
Query: 474 PASKDQEPGSCIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSEA 528
P + E C++C D+ + + L C+HE+HA+C+ KWL CPIC++++
Sbjct: 16 PNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRADS 70
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 25/42 (59%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICK 525
C +C+EDY E + L C+H +H C+ WL + CP+C+
Sbjct: 18 CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 42.4 bits (98), Expect = 7e-04, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICK 525
C IC + E + L C H +H C+ +WL CPIC+
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 58
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 484 CIICQEDYRDNEKIGTLD-CDHEYHAECLKKWLFIKNVCPICK 525
C +C + D E+ L C H +HAEC+ WL + CP+C+
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSE 527
CIIC E + + TL+C H + + C+ +W+ K CPIC+ +
Sbjct: 56 CIICSEYFIEAV---TLNCAHSFCSYCINEWMKRKIECPICRKD 96
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSE 527
CIIC E + + TL+C H + + C+ +W+ K CPIC+ +
Sbjct: 56 CIICSEYFIEAV---TLNCAHSFCSYCINEWMKRKIECPICRKD 96
>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 = 39.3 bits (90), Expect = 0.005, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSE 527
CIIC E + + TL+C H + + C+ +W+ K CPIC+ +
Sbjct: 67 CIICSEYFIEAV---TLNCAHSFCSYCINEWMKRKIECPICRKD 107
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 12/46 (26%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 483 SCIICQEDYRDNEKIGTL-DCDHEYHAECLKKWLFIKNVCPICKSE 527
+C+ CQ + + + + +C+H +H C+ W+ N CP+C+ +
Sbjct: 28 ACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQD 73
>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 = 35.8 bits (81), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 20/44 (45%)
Query: 483 SCIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKS 526
C IC +Y + L C H +H C+ WL CP+C+
Sbjct: 42 CCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRC 85
>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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ E
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNRE 100
>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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ E
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNRE 82
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ E
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNRE 92
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ 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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ E
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNRE 90
>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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNRE 98
>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 = 34.7 bits (78), Expect = 0.15, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 502 CDHEYHAECLKKWLFIKNVCPICKSE 527
C+H +H C+ +WL + VCP+ E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNRE 98
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 483 SCIICQEDYRDNEKIGTL----DCDHEYHAECLKKWLFIKNVCPICKSE 527
SC IC + Y + + G L +C H + ++CL+ L N CP C+ +
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 53
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 34.3 bits (77), Expect = 0.17, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 483 SCIICQEDYRDNEKIGTL----DCDHEYHAECLKKWLFIKNVCPICKSE 527
SC IC + Y + + G L +C H + ++CL+ L N CP C+ +
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 65
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 483 SCIICQEDYRDNEKIGTL----DCDHEYHAECLKKWLFIKNVCPICKSE 527
SC IC + Y + + G L +C H + ++CL+ L N CP C+ +
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 57
Score = 34.3 bits (77), Expect = 0.18, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 483 SCIICQEDYRDNEKIGTL----DCDHEYHAECLKKWLFIKNVCPICKSE 527
SC IC + Y + + G L +C H + ++CL+ L N CP C+ +
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 122
>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 = 33.9 bits (76), Expect = 0.25, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 4/49 (8%)
Query: 483 SCIICQEDYRDNEKIGTL----DCDHEYHAECLKKWLFIKNVCPICKSE 527
SC IC + Y + + G L +C H + ++CL+ L N CP C+ +
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKK 60
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSEALATK 532
C++C + D I ++C H + C+ ++L CPIC + T+
Sbjct: 18 CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSEALATK 532
C++C + D I ++C H + C+ ++L CPIC + T+
Sbjct: 14 CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 60
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 31.6 bits (70), Expect = 1.1, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICKSEALATK 532
C++C + D I ++C H + C+ ++L CPIC + T+
Sbjct: 18 CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHKTR 64
>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 = 31.6 bits (70), Expect = 1.3, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPIC 524
C IC E + N + C H Y + C++K+L K CP C
Sbjct: 25 CGICFEYF--NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2KWJ|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3 Bound To A Histone Peptide
Containing Acetylation At Lysine 14
pdb|2KWK|A Chain A, Solution Structures Of The Double Phd Fingers Of Human
Transcriptional Protein Dpf3b Bound To A H3 Peptide Wild
Type
pdb|2KWN|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing Acetylation At Lysine 16
pdb|2KWO|A Chain A, Solution Structure Of The Double Phd (Plant Homeodomain)
Fingers Of Human Transcriptional Protein Dpf3b Bound To
A Histone H4 Peptide Containing N-Terminal Acetylation
At Serine 1
Length = 114
Score = 30.8 bits (68), Expect = 1.8, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 480 EPGSCIICQEDYRDNEKIGTLDCDHEYHAECL 511
E SCI+C D++ + DCD YH CL
Sbjct: 57 ECKSCILCGTSENDDQLLFCDDCDRGYHMYCL 88
>pdb|2NYN|A Chain A, Crystal Structure Of Phenylalanine Ammonia-Lyase From
Anabaena Variabilis
pdb|2NYN|B Chain B, Crystal Structure Of Phenylalanine Ammonia-Lyase From
Anabaena Variabilis
pdb|2NYN|C Chain C, Crystal Structure Of Phenylalanine Ammonia-Lyase From
Anabaena Variabilis
pdb|2NYN|D Chain D, Crystal Structure Of Phenylalanine Ammonia-Lyase From
Anabaena Variabilis
Length = 565
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 23/35 (65%)
Query: 370 FRIYRSPREGPVPEALRQRSLPHLRVLPSDGVALL 404
F++ + +E P ALRQ +L L +LP +G+A++
Sbjct: 186 FKVDFNGKEMDAPTALRQLNLSPLTLLPKEGLAMM 220
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 30.0 bits (66), Expect = 3.7, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 484 CIICQEDYRDNEKIGTLDCDHEYHAECLKKWLFIKNVCPICK 525
C IC + D L C H + +C+ KW CPIC+
Sbjct: 18 CCICMDGRADL----ILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|1E7L|A Chain A, Endonuclease Vii (Endovii) N62d Mutant From Phage T4
pdb|1E7L|B Chain B, Endonuclease Vii (Endovii) N62d Mutant From Phage T4
pdb|2QNC|A Chain A, Crystal Structure Of T4 Endonuclease Vii N62d Mutant In
Complex With A Dna Holliday Junction
pdb|2QNC|B Chain B, Crystal Structure Of T4 Endonuclease Vii N62d Mutant In
Complex With A Dna Holliday Junction
Length = 157
Score = 28.9 bits (63), Expect = 6.7, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 478 DQEPGSCIICQEDYRDNEKIGTLDCDHE 505
D + G C+ICQ + + + LD DHE
Sbjct: 17 DAQNGKCLICQRELNPDVQANHLDHDHE 44
>pdb|1EN7|A Chain A, Endonuclease Vii (Endovii) From Phage T4
pdb|1EN7|B Chain B, Endonuclease Vii (Endovii) From Phage T4
pdb|1E7D|A Chain A, Endonuclease Vii (Endovii) From Phage T4
pdb|1E7D|B Chain B, Endonuclease Vii (Endovii) From Phage T4
Length = 157
Score = 28.9 bits (63), Expect = 7.1, Method: Composition-based stats.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 478 DQEPGSCIICQEDYRDNEKIGTLDCDHE 505
D + G C+ICQ + + + LD DHE
Sbjct: 17 DAQNGKCLICQRELNPDVQANHLDHDHE 44
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
0.317 0.134 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,804,399
Number of Sequences: 62578
Number of extensions: 834934
Number of successful extensions: 2880
Number of sequences better than 100.0: 109
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 81
Number of HSP's that attempted gapping in prelim test: 2843
Number of HSP's gapped (non-prelim): 117
length of query: 533
length of database: 14,973,337
effective HSP length: 103
effective length of query: 430
effective length of database: 8,527,803
effective search space: 3666955290
effective search space used: 3666955290
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (25.4 bits)