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= 026976
(230 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCNRSI 223
N+ C +C A + C H+FC C E W+ R CP+C + I
Sbjct: 52 NELQCIICSEYFIEAVTLNCAHSFCSYCINE-WMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCNRSI 223
N+ C +C A + C H+FC C E W+ R CP+C + I
Sbjct: 52 NELQCIICSEYFIEAVTLNCAHSFCSYCINE-WMKRKIECPICRKDI 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 = 0.017, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCNRSI 223
N+ C +C A + C H+FC C E W+ R CP+C + I
Sbjct: 63 NELQCIICSEYFIEAVTLNCAHSFCSYCINE-WMKRKIECPICRKDI 108
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 34.7 bits (78), Expect = 0.043, Method: Composition-based stats.
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 179 DSMCCVCMGRKKGAAFIPCGHTFCRVCSREMW--LNRG-SCPLC 219
++ C VC+ K I CGH FC+ C W L R CP+C
Sbjct: 15 EASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 5/39 (12%)
Query: 182 CCVCMGRKKGAAFIPCGH-TFCRVCSREMWLNRGSCPLC 219
C VCM ++ FIPCGH C+ C+ + CP+C
Sbjct: 298 CKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPIC 332
>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain
pdb|4IC2|B Chain B, Crystal Structure Of The Xiap Ring Domain
Length = 74
Score = 33.9 bits (76), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTF-CRVCSREMWLNRGSCPLCNRSILEILDIF 230
+ +C +CM R F+PCGH C+ C+ + CP+C I IF
Sbjct: 23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKIF 72
>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral
Iap Repeat-Containing Protein 4 From Homo Sapiens
Length = 75
Score = 33.9 bits (76), Expect = 0.082, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 179 DSMCCVCMGRKKGAAFIPCGHTF-CRVCSREMWLNRGSCPLC 219
+ +C +CM R F+PCGH C+ C+ + CP+C
Sbjct: 25 EKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMC 62
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 33.9 bits (76), Expect = 0.085, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 177 GNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCNRSILE 225
G+ C +C+ + A PCGH FC+ C + + G CP+ N +LE
Sbjct: 4 GSKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE 53
>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain
pdb|4IC3|B Chain B, Crystal Structure Of The F495l Mutant Xiap Ring Domain
Length = 74
Score = 33.5 bits (75), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTF-CRVCSREMWLNRGSCPLCNRSI 223
+ +C +CM R F+PCGH C+ C+ + CP+C I
Sbjct: 23 EEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVI 65
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 164 LAETEGCDGEEKAGNDSM--CCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCN 220
+ E +G D E +S C +C+ + A PCGH FC+ C + + G CP+ N
Sbjct: 8 MEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 67
Query: 221 RSILE 225
+LE
Sbjct: 68 EILLE 72
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGSCPLCNRSI 223
+ C VC+ R F+PCGH C C+ + L CP+C +
Sbjct: 12 EERTCKVCLDRAVSIVFVPCGHLVCAECAPGLQL----CPICRAPV 53
>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 = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 5/43 (11%)
Query: 182 CCVCMGRKKGAAFIPCGH-TFCRVCSREMWLNRGSCPLCNRSI 223
C VCM ++ FIPCGH C+ C+ + CP+C +I
Sbjct: 27 CKVCMDKEVSIVFIPCGHLVVCKDCAPSLR----KCPICRSTI 65
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 164 LAETEGCDGEEKAGNDSM--CCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCN 220
+ E +G D E +S C +C+ + A PCGH FC+ C + + G CP+ N
Sbjct: 1 MEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60
Query: 221 RSILE 225
+LE
Sbjct: 61 EILLE 65
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 3/39 (7%)
Query: 182 CCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLC 219
CC+CM + +PC H+FC+ C + W +R +CP+C
Sbjct: 18 CCICM-DGRADLILPCAHSFCQKCI-DKWSDRHRNCPIC 54
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 3/56 (5%)
Query: 175 KAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGSCPLCNRSILEILDIF 230
K +C VC + + F PCGHT VC SCP+C + + ++
Sbjct: 14 KLKEAMLCMVCCEEEINSTFCPCGHT---VCCESCAAQLQSCPVCRSRVEHVQHVY 66
>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 = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 3/65 (4%)
Query: 164 LAETEGCDGEEKAGNDSM--CCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRG-SCPLCN 220
+ E +G D E +S C +C+ + A PCGH FC+ C + + G CP+ N
Sbjct: 1 MEEIQGYDVEFDPPLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDN 60
Query: 221 RSILE 225
+LE
Sbjct: 61 EILLE 65
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 167 TEGCDGEEKAGN-DSMCCVCMGRKKG---AAFIPCGHTFCRVCSREMWLNRGSCPLCNRS 222
+ G G+ K N +C VC+ K PC H F R C + R CPLCN
Sbjct: 2 SSGSSGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMP 61
Query: 223 ILEILDI 229
+L++ +
Sbjct: 62 VLQLAQL 68
>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 = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 197 CGHTFCRVCSREMWLNRGSCPLCNRSI 223
CGH FC C R+ N +CP C + I
Sbjct: 35 CGHVFCSQCLRDSLKNANTCPTCRKKI 61
>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 = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 182 CCVCMGRKKGAAFIP-CGHTFCRVCSREMWLNRGSCPLCNRSILE 225
C +C A IP C H +C +C R+ + CP C ++ E
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTE 69
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 197 CGHTFCRVCSREMWLNRGSCPLCNRSI 223
CGH FC C R+ N +CP C + I
Sbjct: 40 CGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 15/31 (48%)
Query: 192 AAFIPCGHTFCRVCSREMWLNRGSCPLCNRS 222
A +PCGH R C EM CPLC S
Sbjct: 22 AHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 197 CGHTFCRVCSREMWLNRGSCPLCNRSI 223
CGH FC C R+ N +CP C + I
Sbjct: 28 CGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 30.8 bits (68), Expect = 0.70, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 181 MCCVCMGRKKGAAFIP-CGHTFCRVCSREMWLNRGSCPLCN 220
+C +C G A I C HTFC+ C + CP CN
Sbjct: 17 LCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCN 57
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 197 CGHTFCRVCSREMWLNRGSCPLCNRSI 223
CGH FC C R+ N +CP C + I
Sbjct: 32 CGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 197 CGHTFCRVCSREMWLNRGSCPLCNRSI 223
CGH FC C R+ N +CP C + I
Sbjct: 97 CGHVFCSQCLRDSLKNANTCPTCRKKI 123
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 30.4 bits (67), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 181 MCCVCMGRKKGAA-FIPCGHTFCRVCSREMWLNRGSCPLCNRSI 223
MC +C G A I C H+FC+ C CP+C+ +
Sbjct: 17 MCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60
>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 = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 182 CCVCMGRKKGAAFIPCGHTFCRVCSR-EMWLNRGSCPLCNRSILE 225
C +C+ +PC H FC +C + WL + C LC + I E
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGK-RCALCRQEIPE 61
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 181 MCCVCMGRKKGAA-FIPCGHTFCRVCSREMWLNRGSCPLCNRSI 223
MC +C G A I C H+FC+ C CP+C+ +
Sbjct: 17 MCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60
>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 = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 192 AAFIPCGHTFCRVCSREMWLNRGSCPLCN 220
A +PCGH R C EM CPLC+
Sbjct: 22 AHVLPCGHLLHRTCYEEMLKEGYRCPLCS 50
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 181 MCCVCMGRKKGAA-FIPCGHTFCRVCSREMWLNRGSCPLCNRSI 223
MC +C G A I C H+FC+ C CP+C+ +
Sbjct: 13 MCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 56
>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 = 29.6 bits (65), Expect = 1.3, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 182 CCVCMGRKKGAAF-IPCGHTFCRVCSREMWLNRGSCPLC 219
C +C+ + +PC H FC VC +CPLC
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLC 46
>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 = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 31/62 (50%), Gaps = 12/62 (19%)
Query: 163 LLAETEGCDGEEKAGNDSMCC--VCMGRKKG--AAFIPCGHTFCRVCSREMWLNR-GSCP 217
L+ E G G+E MCC C KG A +PC H F + C +WL + G+CP
Sbjct: 29 LVTEDHGAVGQE------MCCPICCSEYVKGDVATELPCHHYFHKPCVS-IWLQKSGTCP 81
Query: 218 LC 219
+C
Sbjct: 82 VC 83
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 182 CCVCMGRKKGAAFIPCGHTFCRVCSREMWLNR----GSCPLCNRSI 223
C +C+ K C H FC+ C ++ LN+ CPLC I
Sbjct: 24 CPICLELIKEPVSTKCDHIFCKFCMLKL-LNQKKGPSQCPLCKNDI 68
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 174 EKAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGS-CPLC 219
E +C +C K PCGH C C + G CP C
Sbjct: 329 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 174 EKAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGS-CPLC 219
E +C +C K PCGH C C + G CP C
Sbjct: 329 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 6/48 (12%)
Query: 182 CCVCMGRKKG---AAFIP-CGHTFCRVCSREMWL-NRGSCPLCNRSIL 224
C VC+ + A F+P CGH F C +MWL + +CPLC +++
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECV-DMWLGSHSTCPLCRLTVV 54
>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 = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 174 EKAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGS-CPLC 219
E +C +C K PCGH C C + G CP C
Sbjct: 327 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 174 EKAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGS-CPLC 219
E +C +C K PCGH C C + G CP C
Sbjct: 327 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373
>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 = 4.2, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 182 CCVCMGRKKGAAFIPCGHTFCRVC----SREMWLNRG--SCPLCNRS 222
C +C+ + CGH+FC+ C ++ L++G SCP+C S
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRIS 68
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 178 NDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGS--CPLCNRSI 223
++ C +CM +PC HT C+ C + + + S CP C R +
Sbjct: 14 SECQCGICMEILVEPVTLPCNHTLCKPCFQST-VEKASLCCPFCRRRV 60
>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 = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 17/47 (36%), Gaps = 1/47 (2%)
Query: 174 EKAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSREMWLNRGS-CPLC 219
E +C +C K PCGH C C + G CP C
Sbjct: 333 EMGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 379
>pdb|4FZW|A Chain A, Crystal Structure Of The Paaf-paag Hydratase-isomerase
Complex From E.coli
pdb|4FZW|B Chain B, Crystal Structure Of The Paaf-paag Hydratase-isomerase
Complex From E.coli
Length = 258
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 6 VILQESLDRERETITILALLREKMDGVDSIRRGRGRNLKER 46
V LQ L +ER+ T+LA ++ +G+ + + R + K R
Sbjct: 218 VALQAGLAQERQLFTLLAATEDRHEGISAFLQKRTPDFKGR 258
>pdb|2VJE|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|A Chain A, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|C Chain C, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 64
Score = 27.3 bits (59), Expect = 6.8, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 182 CCVCMGRKKGAAFI--PCGHTF-CRVCSREMWLNRGSCPLCNRSILEIL 227
C +C GR K + GH C C++++ CP+C + I I+
Sbjct: 11 CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIV 59
>pdb|2HDP|A Chain A, Solution Structure Of Hdm2 Ring Finger Domain
pdb|2HDP|B Chain B, Solution Structure Of Hdm2 Ring Finger Domain
Length = 63
Score = 27.3 bits (59), Expect = 6.9, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 3/49 (6%)
Query: 182 CCVCMGRKKGAAFI--PCGHTF-CRVCSREMWLNRGSCPLCNRSILEIL 227
C +C GR K + GH C C++++ CP+C + I I+
Sbjct: 10 CVICQGRPKNGCIVHGKTGHLMACFTCAKKLKKRNKPCPVCRQPIQMIV 58
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 195 IPCGHTFCRVCSREMWLNRGSCPLCNRSI 223
+PC H F +VC + + CP+C I
Sbjct: 33 LPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 22/52 (42%), Gaps = 3/52 (5%)
Query: 175 KAGNDSMCCVCMGRKKGAAFIPCGHTFCRVCSR---EMWLNRGSCPLCNRSI 223
K + +C +C+ + I CGH FC C E CPLC S+
Sbjct: 16 KLQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 26.9 bits (58), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 194 FIPCGHTFCRVCSREMW---LNRGSCPLCNR 221
+ CGHT CR C ++ +N CP C++
Sbjct: 34 LLHCGHTICRQCLEKLLASSINGVRCPFCSK 64
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
0.319 0.135 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,418,856
Number of Sequences: 62578
Number of extensions: 241997
Number of successful extensions: 414
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 369
Number of HSP's gapped (non-prelim): 63
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: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)