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= 042810
(230 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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 37/66 (56%), Gaps = 11/66 (16%)
Query: 162 VKAGDNCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
V +G C VC E+ E ++ +PC+H+FH SCI WLE+ +SCP+CR+
Sbjct: 12 VGSGLECPVCKEDYALGESVR-----------QLPCNHLFHDSCIVPWLEQHDSCPVCRK 60
Query: 222 QIQYED 227
+ ++
Sbjct: 61 SLTGQN 66
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 44.7 bits (104), Expect = 4e-05, Method: Composition-based stats.
Identities = 23/57 (40%), Positives = 29/57 (50%), Gaps = 12/57 (21%)
Query: 165 GDNCAVCLEELIAKEEIKGQTTEKKTQLITMP-CHHIFHASCISRWLEEQNSCPMCR 220
G CAVCL EL EE + +P C H FHA C+ WL ++CP+CR
Sbjct: 5 GVECAVCLAELEDGEEAR-----------FLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>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 = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 6/46 (13%)
Query: 175 LIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCR 220
+ E +KG + +PCHH FH C+S WL++ +CP+CR
Sbjct: 45 ICCSEYVKGDVATE------LPCHHYFHKPCVSIWLQKSGTCPVCR 84
>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 = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 166 DNCAVC----LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C ++ I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 40 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 99
Query: 222 QIQYE 226
+ +++
Sbjct: 100 EWEFQ 104
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 166 DNCAVC----LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C ++ I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 49 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 108
Query: 222 QIQYE 226
+ +++
Sbjct: 109 EWEFQ 113
>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 = 43.9 bits (102), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 166 DNCAVC----LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C ++ I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 38 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97
Query: 222 QIQYE 226
+ +++
Sbjct: 98 EWEFQ 102
>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 = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 166 DNCAVC----LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C ++ I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 30 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 89
Query: 222 QIQYE 226
+ +++
Sbjct: 90 EWEFQ 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 = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 166 DNCAVCLEEL----IAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C + I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 38 DNCAICRNHIXDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 97
Query: 222 QIQYE 226
+ +++
Sbjct: 98 EWEFQ 102
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 23/34 (67%)
Query: 187 EKKTQLITMPCHHIFHASCISRWLEEQNSCPMCR 220
E + L +PC+H FHA C+ +WL+ +CP+CR
Sbjct: 34 ESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 166 DNCAVC----LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C ++ I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 22 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 81
Query: 222 QIQYE 226
+ +++
Sbjct: 82 EWEFQ 86
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 40/85 (47%), Gaps = 18/85 (21%)
Query: 147 SRKQRRVLDLDFNKLVKAGDNCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCI 206
S +V +L+ ++L CAVCLE+ ++E L PC H FH C+
Sbjct: 3 SGSSGKVKELNLHEL------CAVCLEDFKPRDE-----------LGICPCKHAFHRKCL 45
Query: 207 SRWLEEQNSCPMCRRQI-QYEDLVG 230
+WLE + CP+C + Q L G
Sbjct: 46 IKWLEVRKVCPLCNMPVLQLAQLSG 70
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 36/65 (55%), Gaps = 4/65 (6%)
Query: 166 DNCAVC----LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
DNCA+C ++ I + + T ++ + C+H FH CISRWL+ + CP+ R
Sbjct: 32 DNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFHCISRWLKTRQVCPLDNR 91
Query: 222 QIQYE 226
+ +++
Sbjct: 92 EWEFQ 96
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 29/60 (48%), Gaps = 11/60 (18%)
Query: 167 NCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRRQIQYE 226
C +CL L E+++ +PC H+FH C+ +WL CP+CR I+ +
Sbjct: 16 KCTICLSILEEGEDVR-----------RLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 34/57 (59%), Gaps = 1/57 (1%)
Query: 166 DNCAVC-LEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCRR 221
D CA+C ++ + A + + ++ ++ C+H FH C+S W+++ N CP+C++
Sbjct: 16 DTCAICRVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 23/34 (67%)
Query: 191 QLITMPCHHIFHASCISRWLEEQNSCPMCRRQIQ 224
+ +T+ C H F + CI+ W++ + CP+CR+ I+
Sbjct: 65 EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 23/34 (67%)
Query: 191 QLITMPCHHIFHASCISRWLEEQNSCPMCRRQIQ 224
+ +T+ C H F + CI+ W++ + CP+CR+ I+
Sbjct: 65 EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>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 = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 29/64 (45%), Gaps = 13/64 (20%)
Query: 161 LVKAGDNCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMCR 220
+ + C +CLE+ + +PC H F CI+RW+ + +CP+C+
Sbjct: 1 MATVAERCPICLED-------------PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47
Query: 221 RQIQ 224
++
Sbjct: 48 VPVE 51
>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 = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 23/34 (67%)
Query: 191 QLITMPCHHIFHASCISRWLEEQNSCPMCRRQIQ 224
+ +T+ C H F + CI+ W++ + CP+CR+ I+
Sbjct: 76 EAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>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 = 0.028, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 193 ITMPCHHIFHASCISRWLEEQNSCPMCRRQI 223
+ +PC H F CI +W + +CP+CR Q+
Sbjct: 28 LILPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 23/35 (65%)
Query: 192 LITMPCHHIFHASCISRWLEEQNSCPMCRRQIQYE 226
+++ C H+F + C+ L+ N+CP CR++I ++
Sbjct: 35 IVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 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 = 0.051, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 23/35 (65%)
Query: 192 LITMPCHHIFHASCISRWLEEQNSCPMCRRQIQYE 226
+++ C H+F + C+ L+ N+CP CR++I ++
Sbjct: 30 IVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 64
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 23/35 (65%)
Query: 192 LITMPCHHIFHASCISRWLEEQNSCPMCRRQIQYE 226
+++ C H+F + C+ L+ N+CP CR++I ++
Sbjct: 27 IVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 61
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 23/35 (65%)
Query: 192 LITMPCHHIFHASCISRWLEEQNSCPMCRRQIQYE 226
+++ C H+F + C+ L+ N+CP CR++I ++
Sbjct: 92 IVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 126
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.9 bits (76), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 23/35 (65%)
Query: 192 LITMPCHHIFHASCISRWLEEQNSCPMCRRQIQYE 226
+++ C H+F + C+ L+ N+CP CR++I ++
Sbjct: 23 IVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E E CP CR +I+
Sbjct: 351 PCGHLMCTSCLTSWQESEGQGCPFCRCEIK 380
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E E CP CR +I+
Sbjct: 351 PCGHLMCTSCLTSWQESEGQGCPFCRCEIK 380
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E E CP CR +I+
Sbjct: 349 PCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>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 = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E E CP CR +I+
Sbjct: 349 PCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 32.3 bits (72), Expect = 0.25, Method: Composition-based stats.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 17/56 (30%)
Query: 167 NCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRW---LEEQNSCPMC 219
+C+VCLE L + + + C H F +CI+RW LE CP+C
Sbjct: 17 SCSVCLEYL--------------KEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 167 NCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMC 219
NC +CLE++ + +PC H+ H +C L+E CP+C
Sbjct: 7 NCPICLEDIHTSRVVAH----------VLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 31.6 bits (70), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E E CP CR +I+
Sbjct: 41 PCGHLMCTSCLTSWQESEGQGCPFCRCEIK 70
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E E CP CR +I+
Sbjct: 44 PCGHLMCTSCLTSWQESEGQGCPFCRCEIK 73
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 195 MPCHHIFHASCISRWLEEQNSCPMCRRQIQ 224
+ C H F +CI R+LE CP+C Q+
Sbjct: 28 IECLHSFCKTCIVRYLETSKYCPICDVQVH 57
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 197 CHHIFHASCISRWLEEQNSCPMCRRQIQ 224
C H F +CI R+LE CP+C Q+
Sbjct: 34 CLHSFCKTCIVRYLETSKYCPICDVQVH 61
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 197 CHHIFHASCISRWLEEQNSCPMCRRQIQ 224
C H F +CI R+LE CP+C Q+
Sbjct: 34 CLHSFCKTCIVRYLETSKYCPICDVQVH 61
>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 = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 197 CHHIFHASCISRWLEEQNS-CPMCRRQIQYEDLVG 230
C + SCI RWL EQ + CP CR +Q +LV
Sbjct: 41 CSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVN 75
>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 = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E + CP CR +I+
Sbjct: 355 PCGHLMCTSCLTAWQESDGQGCPFCRCEIK 384
>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 = 30.4 bits (67), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 166 DNCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNSCPMC 219
C +CLE++ + +PC H+ H +C L+E CP+C
Sbjct: 6 SGCPICLEDIHTSRVVA----------HVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 196 PCHHIFHASCISRWLE-EQNSCPMCRRQIQ 224
PC H+ SC++ W E + CP CR +I+
Sbjct: 43 PCGHLMCTSCLTAWQESDGQGCPFCRCEIK 72
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 30.0 bits (66), Expect = 1.1, Method: Composition-based stats.
Identities = 15/58 (25%), Positives = 29/58 (50%), Gaps = 18/58 (31%)
Query: 168 CAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCI--SRWLEEQNSCPMCRRQI 223
CA+CL+ + +++PC H+F C+ + WL ++ C +CR++I
Sbjct: 18 CAICLQTCV--------------HPVSLPCKHVFCYLCVKGASWLGKR--CALCRQEI 59
>pdb|3UNG|C Chain C, Structure Of The Cmr2 Subunit Of The Crispr Rna Silencing
Complex
pdb|3UR3|C Chain C, Structure Of The Cmr2 Subunit Of The Crispr Rna Silencing
Complex
Length = 693
Score = 29.3 bits (64), Expect = 1.8, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 176 IAKEEIKGQTTEKKTQLITMPCH------HIF-----HASCISRWLEEQNSCPMC 219
+ + ++ + EK QL CH IF H + S WL+E+ CPMC
Sbjct: 249 LGERKVTEERFEKSEQLKGWKCHVCGENLAIFGDMYDHDNLKSLWLDEEPLCPMC 303
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 15/58 (25%)
Query: 167 NCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQN-SCPMCRRQI 223
C +C+E L+ + +T+PC+H C +E+ + CP CRR++
Sbjct: 17 QCGICMEILV--------------EPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRV 60
>pdb|4DOZ|A Chain A, Crystal Structure Of Pyrococcus Furiosus Cmr2 (Cas10)
Length = 686
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 25/55 (45%), Gaps = 11/55 (20%)
Query: 176 IAKEEIKGQTTEKKTQLITMPCH------HIF-----HASCISRWLEEQNSCPMC 219
+ + ++ + EK QL CH IF H + S WL+E+ CPMC
Sbjct: 234 LGERKVTEERFEKSEQLKGWKCHVCGENLAIFGDMYDHDNLKSLWLDEEPLCPMC 288
>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 = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 33/73 (45%), Gaps = 20/73 (27%)
Query: 162 VKAGDNCAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCI------SRWLEEQNS 215
VK C +CLE L TQ +++ C H F +C+ S + ++S
Sbjct: 16 VKEEVTCPICLELL--------------TQPLSLDCGHSFCQACLTANHKKSMLDKGESS 61
Query: 216 CPMCRRQIQYEDL 228
CP+CR Q E++
Sbjct: 62 CPVCRISYQPENI 74
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 14/57 (24%)
Query: 168 CAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNS-CPMCRRQI 223
C +CL+ L K + T C H F A CI L N CP CR+++
Sbjct: 56 CPICLDML-------------KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 99
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 14/57 (24%)
Query: 168 CAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQN-SCPMCRRQI 223
C +CL+ L K + T C H F A CI L N CP CR+++
Sbjct: 57 CPICLDML-------------KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 100
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 26.9 bits (58), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 24/57 (42%), Gaps = 14/57 (24%)
Query: 168 CAVCLEELIAKEEIKGQTTEKKTQLITMPCHHIFHASCISRWLEEQNS-CPMCRRQI 223
C +CL+ L K + T C H F A CI L N CP CR+++
Sbjct: 37 CPICLDML-------------KNTMTTKECLHRFCADCIITALRSGNKECPTCRKKL 80
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
0.324 0.137 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,121,908
Number of Sequences: 62578
Number of extensions: 214115
Number of successful extensions: 603
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 568
Number of HSP's gapped (non-prelim): 51
length of query: 230
length of database: 14,973,337
effective HSP length: 96
effective length of query: 134
effective length of database: 8,965,849
effective search space: 1201423766
effective search space used: 1201423766
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: 50 (23.9 bits)