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= psy5318
(176 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 72.4 bits (176), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 40/55 (72%)
Query: 89 TKAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 143
T+ + S L+C VC E + L E+VR+LPC+H +H CI PWL+ H +CP+CR++L
Sbjct: 8 TEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>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 = 59.7 bits (143), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 39/70 (55%), Gaps = 2/70 (2%)
Query: 73 PPLSTDKIKQIPVAHITK--AQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWL 130
PP S + I +P +T+ + + C +C ++ + +LPC H++H PC+ WL
Sbjct: 15 PPASKESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWL 74
Query: 131 QLHGTCPICR 140
Q GTCP+CR
Sbjct: 75 QKSGTCPVCR 84
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 51.6 bits (122), Expect = 2e-07, Method: Composition-based stats.
Identities = 21/52 (40%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 93 IDSNLQCSVCWEQFTLDEAVRKLP-CDHFYHTPCIEPWLQLHGTCPICRQTL 143
+D ++C+VC + E R LP C H +H C++ WL H TCP+CR T+
Sbjct: 2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%)
Query: 99 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 140
C VC F + +R LPC+H +H C++ WL+ + TCPICR
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 46.6 bits (109), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%)
Query: 98 QCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 140
+C++C E VR+LPC H +H C++ WL + CPICR
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 46.6 bits (109), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 4/100 (4%)
Query: 44 GNPGDYAWGREGLDAIVTQLLNQMDGSGPPPLSTDKIKQIPVAHITKAQIDSNLQCSVCW 103
G+ + ++ +AI+ +++ + K+ ++H+ +++ LQC +C
Sbjct: 2 GSMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDV-LENELQCIICS 60
Query: 104 EQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 143
E F EAV L C H + + CI W++ CPICR+ +
Sbjct: 61 EYFI--EAV-TLNCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 46.6 bits (109), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 49/100 (49%), Gaps = 4/100 (4%)
Query: 44 GNPGDYAWGREGLDAIVTQLLNQMDGSGPPPLSTDKIKQIPVAHITKAQIDSNLQCSVCW 103
G+ + ++ +AI+ +++ + K+ ++H+ +++ LQC +C
Sbjct: 2 GSMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDV-LENELQCIICS 60
Query: 104 EQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 143
E F EAV L C H + + CI W++ CPICR+ +
Sbjct: 61 EYFI--EAV-TLNCAHSFCSYCINEWMKRKIECPICRKDI 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 = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 46/92 (50%), Gaps = 4/92 (4%)
Query: 52 GREGLDAIVTQLLNQMDGSGPPPLSTDKIKQIPVAHITKAQIDSNLQCSVCWEQFTLDEA 111
++ +AI+ +++ + K+ ++H+ +++ LQC +C E F EA
Sbjct: 21 SKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDV-LENELQCIICSEYFI--EA 77
Query: 112 VRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 143
V L C H + + CI W++ CPICR+ +
Sbjct: 78 V-TLNCAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 99 CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPIC 139
C+VC E F + + PC H +H C+ WL++ CP+C
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 74 PLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL 132
P D IK + ++ S Q C +C E D+ V+ PC H T C+ W +
Sbjct: 311 PTPQDHIKVTQEQYELXCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTSWQES 367
Query: 133 HGT-CPICR 140
G CP CR
Sbjct: 368 EGQGCPFCR 376
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 35.4 bits (80), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 74 PLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL 132
P D IK + ++ S Q C +C E D+ V+ PC H T C+ W +
Sbjct: 309 PTPQDHIKVTQEQYELYCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTSWQES 365
Query: 133 HGT-CPICR 140
G CP CR
Sbjct: 366 EGQGCPFCR 374
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 74 PLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL 132
P D IK + ++ S Q C +C E D+ V+ PC H T C+ W +
Sbjct: 309 PTPQDHIKVTQEQYELYCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTSWQES 365
Query: 133 HGT-CPICR 140
G CP CR
Sbjct: 366 EGQGCPFCR 374
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 92 QIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICR 140
Q+ +C +C + A LPC H + CI+ W H CPICR
Sbjct: 11 QLTDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 5/70 (7%)
Query: 73 PPLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQ 131
P + +D IK + ++ S Q C +C E D+ V+ PC H T C+ W +
Sbjct: 2 PHMGSDHIKVTQEQYELXCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTAWQE 58
Query: 132 LHGT-CPICR 140
G CP CR
Sbjct: 59 SDGQGCPFCR 68
>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 = 34.7 bits (78), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 93 IDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTL 143
ID L+C +C+E F + + + C H Y + CI +L CP C T+
Sbjct: 19 IDDLLRCGICFEYFNIAMIIPQ--CSHNYCSLCIRKFLSYKTQCPTCCVTV 67
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 29/69 (42%), Gaps = 5/69 (7%)
Query: 74 PLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL 132
P D IK ++ S Q C +C E D+ V+ PC H T C+ W +
Sbjct: 311 PTPQDHIKVTQEQFELXCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTSWQES 367
Query: 133 HGT-CPICR 140
G CP CR
Sbjct: 368 EGQGCPFCR 376
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 34.7 bits (78), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 74 PLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQL 132
P D IK + ++ S Q C +C E D+ V+ PC H T C+ W +
Sbjct: 315 PTPHDHIKVTQEQYELYCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTAWQES 371
Query: 133 HGT-CPICR 140
G CP CR
Sbjct: 372 DGQGCPFCR 380
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 33.9 bits (76), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 71 GPPPLSTDKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPW 129
G P D IK ++ S Q C +C E D+ V+ PC H T C+ W
Sbjct: 1 GSEPTPQDHIKVTQEQFELXCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTSW 57
Query: 130 LQLHGT-CPICR 140
+ G CP CR
Sbjct: 58 QESEGQGCPFCR 69
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 33.1 bits (74), Expect = 0.094, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 20/49 (40%), Gaps = 1/49 (2%)
Query: 95 SNLQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHGTCPICRQT 142
S C +C E V LPC H H C E L+ CP+C +
Sbjct: 4 SQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 78 DKIKQIPVAHITKAQIDSNLQ-CSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGT- 135
D IK + ++ S Q C +C E D+ V+ PC H T C+ W + G
Sbjct: 5 DHIKVTQEQYELYCEMGSTFQLCKICAEN---DKDVKIEPCGHLMCTSCLTSWQESEGQG 61
Query: 136 CPICR 140
CP CR
Sbjct: 62 CPFCR 66
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 88 ITKAQI-DSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQ 141
I + Q+ D+ L+C E D V C+H +H C+ W++ + CP+C+Q
Sbjct: 20 ICRVQVMDACLRCQA--ENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>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 = 31.6 bits (70), Expect = 0.26, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 99 CSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWLQLHGTCPIC 139
C +C E V LPC H H C E L+ CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 88 ITKAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH 144
I +++ +L C +C F +A + C H + CI +L+ CPIC +H
Sbjct: 7 IKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVH 61
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.6 bits (65), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 88 ITKAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH 144
I +++ +L C +C F +A + C H + CI +L+ CPIC +H
Sbjct: 7 IKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVH 61
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 88 ITKAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHGTCPICRQTLH 144
I +++ +L C +C F +A + C H + CI +L+ CPIC +H
Sbjct: 3 IKITELNPHLMCVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPICDVQVH 57
>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 = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 115 LPCDHFYHTPCIEPWLQLHGTCPICR 140
LPC H + CI W++ + TCP+C+
Sbjct: 22 LPCLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 95 SNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEPWLQLHG-TCPICRQTL 143
S QC +C E L E V LPC+H PC + ++ CP CR+ +
Sbjct: 14 SECQCGICME--ILVEPV-TLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
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 = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 117 CDHFYHTPCIEPWLQLHGTCPI 138
C+H +H CI WL+ CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 97 LQCSVCWEQFTLDEAVRK-LPCDHFYHTPCIEPWL--QLHGT-CPICRQ 141
L+C +C E FT ++ K L C H C+E L ++G CP C +
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 11/76 (14%)
Query: 69 GSGPPPLSTDKIKQIPVAHITKAQIDSNLQCSVCWEQFTLDEAVRKLPCDHFYHTPCIEP 128
GSG +T+ + +PV + ++ C VC ++ + ++ +PC H P
Sbjct: 2 GSG----TTEDVSDLPVEEQLR-RLQEERTCKVCMDK---EVSIVFIPCGHLVVCKDCAP 53
Query: 129 WLQLHGTCPICRQTLH 144
L+ CPICR T+
Sbjct: 54 SLR---KCPICRSTIK 66
>pdb|2YJN|A Chain A, Structure Of The Glycosyltransferase Eryciii From The
Erythromycin Biosynthetic Pathway, In Complex With Its
Activating Partner, Erycii
Length = 441
Score = 26.2 bits (56), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 3 GSTQLAIPD-WLSSKRTRRTLSASVGVSLANPEFAP 37
G Q+ +PD W + R +RT G++L PE P
Sbjct: 355 GVPQVILPDGWDTGVRAQRTQEFGAGIALPVPELTP 390
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 0.136 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,968,224
Number of Sequences: 62578
Number of extensions: 190944
Number of successful extensions: 491
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 463
Number of HSP's gapped (non-prelim): 45
length of query: 176
length of database: 14,973,337
effective HSP length: 92
effective length of query: 84
effective length of database: 9,216,161
effective search space: 774157524
effective search space used: 774157524
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: 48 (23.1 bits)