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= psy10800
(81 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
pdb|1Z6U|B Chain B, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
Length = 150
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%)
Query: 18 IREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN 72
+++ +++ C C+ V T+CFH C DCL+ ++ + CP C G N
Sbjct: 72 LKKLEQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQN 126
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 29/65 (44%), Gaps = 8/65 (12%)
Query: 24 TLTCPSCKVKRKDAV-------LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR 76
T++CP C + V T+C HVFC CLR + CP C YH
Sbjct: 7 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHP 65
Query: 77 LYLGS 81
+Y+GS
Sbjct: 66 IYIGS 70
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 8/63 (12%)
Query: 24 TLTCPSCKVKRKDAV-------LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR 76
T++CP C + V T+C HVFC CLR + CP C YH
Sbjct: 72 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHP 130
Query: 77 LYL 79
+Y+
Sbjct: 131 IYI 133
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 19 REYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYETRQRKCPKC 65
R L CP C K+ + TK C H FC DC+ T + ++CP C
Sbjct: 49 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTC 96
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 36.6 bits (83), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 19 REYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYETRQRKCPKC 65
R L CP C K+ + TK C H FC DC+ T + ++CP C
Sbjct: 48 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTC 95
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 19 REYKETLTCPSCKVKRKDAVLTK-CFHVFCWDCLRTRYETRQRKCPKC 65
R L CP C K+ + TK C H FC DC+ T + ++CP C
Sbjct: 29 RSLHSELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTC 76
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 22 KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR-----KCPKCNAAF 69
KE +TCP C K+ V C H FC C+ YE+ + CP C +
Sbjct: 17 KEEVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPY 69
>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 = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 27/63 (42%), Gaps = 8/63 (12%)
Query: 24 TLTCPSCKVKRKDAV-------LTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHR 76
T++CP C + V T+C HVFC CLR + CP C YH
Sbjct: 10 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLK-NANTCPTCRKKINHKRYHP 68
Query: 77 LYL 79
+Y+
Sbjct: 69 IYI 71
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 17 EIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNAA 68
+ E + C CK DA +T+C H FC C+ R+ +CPKCN
Sbjct: 8 NLSELTPYILCSICKGYLIDATTITECLHTFCKSCI-VRHFYYSNRCPKCNIV 59
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.1 bits (74), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 38 VLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDYHRLYL 79
V T+C HVFC CLR + CP C YH +Y+
Sbjct: 24 VSTECGHVFCSQCLRDSLKN-ANTCPTCRKKINHKRYHPIYI 64
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 8/73 (10%)
Query: 8 GTLDEVMLEEIREY--------KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQ 59
G+ +EEI+ Y + CP C + ++AV T C H FC C+
Sbjct: 1 GSSGSSGMEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAG 60
Query: 60 RKCPKCNAAFGAN 72
KCP N N
Sbjct: 61 HKCPVDNEILLEN 73
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 18 IREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQ--RKCPKC 65
I ++ L CP C K+ V TKC H+FC C+ ++ +CP C
Sbjct: 15 INAMQKILECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLC 64
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 32.0 bits (71), Expect = 0.092, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 23/51 (45%), Gaps = 6/51 (11%)
Query: 16 EEIREYKETLTCPSCKVKRKDAVLTKCFH-VFCWDCLRTRYETRQRKCPKC 65
E++R +E TC C K V C H V C +C + RKCP C
Sbjct: 287 EQLRRLQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPS-----LRKCPIC 332
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The
P1 Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The
C2 Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The
C2 Space Group
Length = 118
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 20/46 (43%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGAN 72
CP C + ++AV T C H FC C+ KCP N N
Sbjct: 21 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLEN 66
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCP 63
CP C + ++AV T C H FC C+ KCP
Sbjct: 9 CPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCP 45
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 8/66 (12%)
Query: 15 LEEIREY--------KETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCN 66
+EEI+ Y + CP C + ++AV T C H FC C+ KCP N
Sbjct: 1 MEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60
Query: 67 AAFGAN 72
N
Sbjct: 61 EILLEN 66
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3
Ubiquitin- Protein Ligase Uhrf1
Length = 124
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 3/70 (4%)
Query: 1 MKKIEQAGTLDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR 60
+K +G+ ++ L ++ +ET C C+ + T C H C DCL + +
Sbjct: 32 LKDRPASGSPFQLFLSKV---EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVF 88
Query: 61 KCPKCNAAFG 70
CP C G
Sbjct: 89 SCPACRYDLG 98
>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 = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 31/68 (45%), Gaps = 10/68 (14%)
Query: 7 AGTLDEV----MLEEIREYKETLTCPSCKVKRKDAVLTKCFH-VFCWDCLRTRYETRQRK 61
+GT ++V + E++R +E TC C K V C H V C DC + RK
Sbjct: 3 SGTTEDVSDLPVEEQLRRLQEERTCKVCMDKEVSIVFIPCGHLVVCKDCAPS-----LRK 57
Query: 62 CPKCNAAF 69
CP C +
Sbjct: 58 CPICRSTI 65
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL + E+ + CP C
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL + E+ + CP C
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
>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 = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL + E+ + CP C
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL + E+ + CP C
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL + E+ + CP C
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 65
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 18/39 (46%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL + E+ + CP C
Sbjct: 30 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 68
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL E+ + CP C
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 67
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 22 KETLTCPSCKVKRKDAVLTKCFHVFCWDCL-----RTRYETRQRKCPKCNAAF 69
KE +TCP C + C H FC CL ++ + + CP C ++
Sbjct: 17 KEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISY 69
>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 = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 27 CPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
C C KD + C H+ C CL E+ + CP C
Sbjct: 341 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 379
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 18 IREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKCNAAFGAN 72
+ + +E + CP C + V C H FC C+ ET KCP C + N
Sbjct: 14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN 70
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 17 EIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNA 67
+I E L C C DA + +C H FC C+ RY + CP C+
Sbjct: 8 KITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCI-VRYLETSKYCPICDV 58
>pdb|3NGN|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In
Complex With Amp
pdb|3NGO|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain In
Complex With Poly(A) Dna
Length = 398
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 14 MLEEIREYKETLTC-PSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQR--KCP 63
ML+ + + E L P +K +D +L + F V C++ L +Y TRQ CP
Sbjct: 1 MLDNLAVHPEQLPPRPWITLKERDQILPSASFTVMCYNVLCDKYATRQLYGYCP 54
>pdb|3NGQ|A Chain A, Crystal Structure Of The Human Cnot6l Nuclease Domain
Length = 398
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 14 MLEEIREYKETLTC-PSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQR--KCP 63
ML+ + + E L P +K +D +L + F V C++ L +Y TRQ CP
Sbjct: 1 MLDNLAVHPEQLPPRPWITLKERDQILPSASFTVMCYNVLCDKYATRQLYGYCP 54
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 8/49 (16%)
Query: 24 TLTCPSCKVKRKDAV-------LTKCFHVFCWDCLRTRYETRQRKCPKC 65
T++CP C + V T+C HVFC CLR + CP C
Sbjct: 15 TVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKN-ANTCPTC 62
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 20 EYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
+ ++++C C+ D V T C H+FC C+ + CP C
Sbjct: 19 HFVKSISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSC 64
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 18 IREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCPKC 65
+ + +E + CP C + V C H FC C+ ET KCP C
Sbjct: 14 VNKLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 17 EIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNA 67
+I E L C C DA + +C H FC C+ RY + CP C+
Sbjct: 8 KITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCI-VRYLETSKYCPICDV 58
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 17 EIREYKETLTCPSCKVKRKDAV-LTKCFHVFCWDCLRTRYETRQRKCPKCNA 67
+I E L C C DA + +C H FC C+ RY + CP C+
Sbjct: 4 KITELNPHLMCVLCGGYFIDATTIIECLHSFCKTCI-VRYLETSKYCPICDV 54
>pdb|2RD2|A Chain A, Glutaminyl-Trna Synthetase Mutant C229r With Bound Analog
5'-O-[n-(L- Glutaminyl)-Sulfamoyl]adenosine
pdb|2RE8|A Chain A, Glutaminyl-Trna Synthetase Mutant C229r With Bound Analog
5'-O-[n-(L-Glutamyl)-Sulfamoyl]adenosine
Length = 556
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 122 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 158
>pdb|3VK6|A Chain A, Crystal Structure Of A Phosphotyrosine Binding Domain
Length = 101
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 39 LTKCFHVFCWDCLRTRYETRQRKCPKCN 66
+ C HVFC+DC + + CP C+
Sbjct: 17 MIPCKHVFCYDCAILHEKKGDKMCPGCS 44
>pdb|1QRT|A Chain A, Glutaminyl-Trna Synthetase Mutant D235g Complexed With
Glutamine Transfer Rna
Length = 553
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 121 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 157
>pdb|1NYL|A Chain A, Unliganded Glutaminyl-Trna Synthetase
Length = 539
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 114 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 150
>pdb|1O0B|A Chain A, Crystal Structure Of L-Glutamine And Ampcpp Bound To
Glutamine Aminoacyl Trna Synthetase
pdb|1O0C|A Chain A, Crystal Structure Of L-glutamate And Ampcpp Bound To
Glutamine Aminoacyl Trna Synthetase
Length = 554
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 122 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 158
>pdb|1QRS|A Chain A, Glutaminyl-Trna Synthetase Mutant D235n Complexed With
Glutamine Transfer Rna
Length = 553
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 121 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 157
>pdb|1GSG|P Chain P, Structure Of E.Coli Glutaminyl-Trna Synthetase Complexed
With Trnagln And Atp At 2.8 Angstroms Resolution
pdb|1GTR|A Chain A, Structural Basis Of Anticodon Loop Recognition By
Glutaminyl-Trna Synthetase
pdb|1GTS|A Chain A, Structural Basis For Transfer Rna Aminoaceylation By
Escherichia Coli Glutaminyl-Trna Synthetase
pdb|1QTQ|A Chain A, Glutaminyl-Trna Synthetase Complexed With Trna And An
Amino Acid Analog
pdb|1ZJW|A Chain A, Glutaminyl-trna Synthetase Complexed To Glutamine And
2'deoxy A76 Glutamine Trna
Length = 553
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 121 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 157
>pdb|1EUQ|A Chain A, Crystal Structure Of Glutaminyl-Trna Synthetase Complexed
With A Trna- Gln Mutant And An Active-Site Inhibitor
pdb|1EUY|A Chain A, Glutaminyl-Trna Synthetase Complexed With A Trna Mutant
And An Active Site Inhibitor
pdb|1EXD|A Chain A, Crystal Structure Of A Tight-Binding Glutamine Trna Bound
To Glutamine Aminoacyl Trna Synthetase
Length = 548
Score = 26.9 bits (58), Expect = 2.8, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 21/37 (56%)
Query: 10 LDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVF 46
+DE+ E+IREY+ TLT P +D + + +F
Sbjct: 122 VDELTPEQIREYRGTLTQPGKNSPYRDRSVEENLALF 158
>pdb|1BOR|A Chain A, Transcription Factor Pml, A Proto-Oncoprotein, Nmr, 1
Representative Structure At Ph 7.5, 30 C, In The
Presence Of Zinc
Length = 56
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 25 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAF 69
L C C+ + K L C H C CL E +CP C A +
Sbjct: 7 LRCQQCQAEAKCPKLLPCLHTLCSGCL----EASGMQCPICQAPW 47
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human
Ubiquitin- Protein Ligase (E3), Northeast Structural
Genomics Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human
Ubiquitin- Protein Ligase (E3), Northeast Structural
Genomics Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human
Ubiquitin- Protein Ligase (E3), Northeast Structural
Genomics Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human
Ubiquitin- Protein Ligase (E3), Northeast Structural
Genomics Consortium Target Hr4604d
Length = 100
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 30/61 (49%), Gaps = 6/61 (9%)
Query: 11 DEVMLEEIREYKETLTCPSCKVKRKDAVL-TKCFHVFCWDCLRTRYETRQR-KCPKCNAA 68
DE +E I E C C K +DA L C + C+ C+R R+ T QR +CP C A
Sbjct: 12 DEQSVESI---AEVFRCFICXEKLRDARLCPHCSKLCCFSCIR-RWLTEQRAQCPHCRAP 67
Query: 69 F 69
Sbjct: 68 L 68
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 10/62 (16%)
Query: 6 QAGTLDEVMLEEIREYKETLTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQR--KCP 63
+G L+ + +E +C C K+ V+ +C H FC C+ +E +R CP
Sbjct: 5 SSGALENLQVEA--------SCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCP 56
Query: 64 KC 65
C
Sbjct: 57 VC 58
>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 = 25.8 bits (55), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 27 CPSCKVKRKD-AVLTKCFHVFCWDCLRTRYETRQRKCPKC 65
CP C + ++ C H FC+ C+ TR+ + CP C
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCI-TRWIRQNPTCPLC 46
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 16/36 (44%), Gaps = 4/36 (11%)
Query: 39 LTKCFHVFCWDCLRTRY----ETRQRKCPKCNAAFG 70
LTKC H F CL Y + +CP C +G
Sbjct: 58 LTKCSHAFHLLCLLAMYCNGNKDGSLQCPSCKTIYG 93
>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 = 25.4 bits (54), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 25 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY 74
L C C +AV C H FC C+ + R+ +CP C + Y
Sbjct: 65 LQCIICSEYFIEAVTLNCAHSFCSYCI-NEWMKRKIECPICRKDIKSKTY 113
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 25 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY 74
L C C +AV C H FC C+ + R+ +CP C + Y
Sbjct: 54 LQCIICSEYFIEAVTLNCAHSFCSYCI-NEWMKRKIECPICRKDIKSKTY 102
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 25.0 bits (53), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 1/50 (2%)
Query: 25 LTCPSCKVKRKDAVLTKCFHVFCWDCLRTRYETRQRKCPKCNAAFGANDY 74
L C C +AV C H FC C+ + R+ +CP C + Y
Sbjct: 54 LQCIICSEYFIEAVTLNCAHSFCSYCI-NEWMKRKIECPICRKDIKSKTY 102
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
0.325 0.137 0.449
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,252,220
Number of Sequences: 62578
Number of extensions: 66603
Number of successful extensions: 242
Number of sequences better than 100.0: 61
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 194
Number of HSP's gapped (non-prelim): 63
length of query: 81
length of database: 14,973,337
effective HSP length: 50
effective length of query: 31
effective length of database: 11,844,437
effective search space: 367177547
effective search space used: 367177547
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)