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= 028459
(208 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 106 LEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMKRVN 157
L E+EC IC++ ++LP C H+ C KC W+ + +CP CR M N
Sbjct: 12 LTDEEECCICMDGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQMTGAN 62
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 46/112 (41%), Gaps = 11/112 (9%)
Query: 49 LTSPGRKATIREFYGVILPSLQRLHSNLRELDDAKIENLEIGSFDRMRGDSQVGSA---- 104
L SPG + + ++ L R + + AK + LE ++ + +Q
Sbjct: 3 LGSPGFQE-----HWALMEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHM 57
Query: 105 --DLEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMK 154
LE E +C IC E + V NC H+ C C W + CP CR +K
Sbjct: 58 NDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 6/95 (6%)
Query: 66 LPSLQRLHSNLRELDDAKIENLEIGSFDRMRGDSQVGSA------DLEREDECGICLEPC 119
+ L R + + AK + LE ++ + +Q LE E +C IC E
Sbjct: 4 MEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF 63
Query: 120 TKMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMK 154
+ V NC H+ C C W + CP CR +K
Sbjct: 64 IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 6/95 (6%)
Query: 66 LPSLQRLHSNLRELDDAKIENLEIGSFDRMRGDSQVGSA------DLEREDECGICLEPC 119
+ L R + + AK + LE ++ + +Q LE E +C IC E
Sbjct: 4 MEELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYF 63
Query: 120 TKMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMK 154
+ V NC H+ C C W + CP CR +K
Sbjct: 64 IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>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 = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C +W ++ + CPFCR +K
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C +W ++ + CPFCR +K
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 380
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C +W ++ + CPFCR +K
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 378
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C +W ++ + CPFCR +K
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 380
>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 = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C W + + CPFCR +K
Sbjct: 341 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEIK 384
>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 = 0.036, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 4/76 (5%)
Query: 112 CGICLEPCT-KMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMKRVNSEDLWVLTCTDDV 170
CGIC E M++P C H C C R + + CP C ++ + ++ +L D++
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRIL---DEL 81
Query: 171 IDPETVSKEDLLRFYL 186
+ ++ LL+F L
Sbjct: 82 VKSLNFARNHLLQFAL 97
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 33.9 bits (76), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 4/51 (7%)
Query: 109 EDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKSE-SCPFCRGSMKRVNS 158
E +CGIC+E + V C H +C C+++ K+ CPFCR +RV+S
Sbjct: 15 ECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCR---RRVSS 62
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 33.9 bits (76), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C +W ++ + CPFCR +K
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 70
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 33.5 bits (75), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C +W ++ + CPFCR +K
Sbjct: 30 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEIK 73
>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 = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 110 DECGICLEPCT--KMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMKRV 156
+ C ICLE + M LP C HA C C W ++ +CP C+ ++ V
Sbjct: 6 ERCPICLEDPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCKVPVESV 53
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 112 CGICLEPCTKMVLPNCCHAMCIKCYRNWN-TKSESCPFCRGSMK 154
C IC E + + C H MC C W + + CPFCR +K
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEIK 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 = 31.6 bits (70), Expect = 0.35, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 106 LEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKSESCPFCRGSMK 154
L+ E C +CL+ +V C H +C +C + CP CR ++
Sbjct: 10 LQEERTCKVCLDRAVSIVFVPCGHLVCAECAPGL----QLCPICRAPVR 54
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 30.8 bits (68), Expect = 0.61, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 111 ECGICLEPCTK----MVLPNCCHAMCIKCYRNWNTKSESCPFCR 150
EC +CL LP C H +C W +CP CR
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 3/53 (5%)
Query: 106 LEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKSES---CPFCRGSMKR 155
L+ E C ICL+ K V +C H C+KC S CP C+ S+++
Sbjct: 17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK 69
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 29.6 bits (65), Expect = 1.3, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 21/47 (44%), Gaps = 3/47 (6%)
Query: 106 LEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKS---ESCPFC 149
L+ E C ICL+ K V +C H C+KC S CP C
Sbjct: 17 LQEEVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>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 = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 104 ADLEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKS------ESCPFCRGSMKRVN 157
+++ E C ICLE T+ + +C H+ C C + KS SCP CR S + N
Sbjct: 14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN 73
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.9 bits (63), Expect = 2.1, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 10/53 (18%)
Query: 112 CGICLEPCTKMVL-------PNCCHAMCIKCYRNWNTKSESCPFCRGSMKRVN 157
C IC++ +++V C H C +C R+ + +CP CR K++N
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR---KKIN 55
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.9 bits (63), Expect = 2.1, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 10/53 (18%)
Query: 112 CGICLEPCTKMVL-------PNCCHAMCIKCYRNWNTKSESCPFCRGSMKRVN 157
C IC++ +++V C H C +C R+ + +CP CR K++N
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR---KKIN 67
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 98 DSQVGSADLEREDECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKS-------ESCPFC 149
S S +++ E C ICLE T+ + +C H++C C N ++ SCP C
Sbjct: 1 GSSGSSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 106 LEREDECGICLEPCTKMVLPNCCH-AMCIKCYRNWNTKSESCPFCRGSMK 154
L+ E C +C++ +V C H +C +C + CP CRG +K
Sbjct: 292 LQEERTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIK 337
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 18/40 (45%)
Query: 111 ECGICLEPCTKMVLPNCCHAMCIKCYRNWNTKSESCPFCR 150
EC ICL+ C V C H C C + + + C CR
Sbjct: 17 ECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCR 56
>pdb|4IFD|C Chain C, Crystal Structure Of An 11-subunit Eukaryotic Exosome
Complex Bound To Rna
Length = 393
Score = 26.9 bits (58), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 31/66 (46%), Gaps = 11/66 (16%)
Query: 3 LVYDHWAPLF---WFLLQWVNSSCMCVLPRYLNFFHILVYKVSADDRPSLTSPGRKATIR 59
+V P+F W L + S LPR + + ++D R ++ + GR ATIR
Sbjct: 217 VVLSRTGPVFDLCWNSLMYALQSVK--LPRAF------IDERASDLRMTIRTRGRSATIR 268
Query: 60 EFYGVI 65
E Y +I
Sbjct: 269 ETYEII 274
>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 = 9.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 112 CGICLEPCTKMVL-PNCCHAMCIKCYRNWNTKSES-CPFCRGSMK 154
C IC E L P+C C C R W T+ + CP CR ++
Sbjct: 25 CFICXEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQ 69
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 0.141 0.465
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,607,098
Number of Sequences: 62578
Number of extensions: 260155
Number of successful extensions: 714
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 673
Number of HSP's gapped (non-prelim): 43
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
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: 49 (23.5 bits)