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= 032728
(135 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 = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 84 KDLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSC 126
K L +EC ICM+ ++LP C HS C C W+ R ++C
Sbjct: 10 KQLTDEEECCICMDGRADLILP-CAHSFCQKCIDKWSDRHRNC 51
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 43/101 (42%), Gaps = 15/101 (14%)
Query: 28 SSKERKATLREFYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKRVEERRKLSDKD-- 85
S +E + ++F AII ++LE Q E + + ++ LS +
Sbjct: 3 SMEELNRSKKDFEAIIQAKNKELE-------------QTKEEKEKMQAQKEEVLSHMNDV 49
Query: 86 LDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSC 126
L+ +C IC E + V NC HS C C ++W R C
Sbjct: 50 LENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIEC 90
>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 = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 2/69 (2%)
Query: 60 NSKRDQCSEISSRKRVEERRKLSDKD--LDRNDECGICMENCTKMVLPNCGHSLCVNCFH 117
N + +Q E + + ++ LS + L+ +C IC E + V NC HS C C +
Sbjct: 33 NKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCIN 92
Query: 118 DWNARSQSC 126
+W R C
Sbjct: 93 EWMKRKIEC 101
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 33.5 bits (75), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 43/101 (42%), Gaps = 15/101 (14%)
Query: 28 SSKERKATLREFYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKRVEERRKLSDKD-- 85
S +E + ++F AII ++LE Q E + + ++ LS +
Sbjct: 3 SMEELNRSKKDFEAIIQAKNKELE-------------QTKEEKEKMQAQKEEVLSHMNDV 49
Query: 86 LDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSC 126
L+ +C IC E + V NC HS C C ++W R C
Sbjct: 50 LENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIEC 90
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 33.1 bits (74), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPF 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 = 33.1 bits (74), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPF 372
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 33.1 bits (74), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPF 372
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 33.1 bits (74), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPF 374
>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 = 32.3 bits (72), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 9/91 (9%)
Query: 39 FYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKRVEERRKLSDKDLDRNDECGICMEN 98
FY +YP R + + L + + D K +E+ +L + C IC EN
Sbjct: 296 FY--LYPDGRSYNPDLTGLCEPTPHDHI------KVTQEQYELYCEMGSTFQLCKICAEN 347
Query: 99 CTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
+ + CGH +C +C W + Q C F
Sbjct: 348 DKDVKIEPCGHLMCTSCLTAWQESDGQGCPF 378
>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 = 0.15, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPF 64
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 30 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPF 67
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 91 ECGICMENCTKMVLPNCGHSLCVNCFHDWNARSQSC 126
+CGICME + V C H+LC CF ++ C
Sbjct: 17 QCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLC 52
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWN-ARSQSCLF 128
C IC EN + + CGH +C +C W + Q C F
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPF 66
>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 = 29.3 bits (64), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 84 KDLDRNDECGICMENCT-KMVLPNCGH---SLCVNCFHDWNARSQSCLFAVA 131
K +D CGIC E M++P C H SLC+ F + + +C V
Sbjct: 17 KTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVT 68
>pdb|2YNM|D Chain D, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
Length = 530
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 15 VNVQVYVDGMPALSSKERKATLREFYAIIYPSLRQLESEFSELEDNSKRDQCSEISSRKR 74
+N+ + +PA S KE FY +I R L E SE N+ + E R R
Sbjct: 113 LNIPIVSLELPAYSKKENWGASETFYQLI----RGLLKEISEDSSNNAKQSWQEEGRRPR 168
Query: 75 V 75
V
Sbjct: 169 V 169
>pdb|3CE2|A Chain A, Crystal Structure Of Putative Peptidase From Chlamydophila
Abortus
Length = 618
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 25 PALSSKERKATLREFYAIIYPSLRQLESEF 54
P SKE+K T +E +IY SL L +E+
Sbjct: 319 PLSQSKEKKYTFQEAVDLIYTSLSPLGTEY 348
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 18/36 (50%)
Query: 84 KDLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDW 119
++L C +C+E + V+ CGH+ C C W
Sbjct: 10 ENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRW 45
>pdb|2ECP|A Chain A, The Crystal Structure Of The E. Coli Maltodextrin
Phosphorylase Complex
pdb|2ECP|B Chain B, The Crystal Structure Of The E. Coli Maltodextrin
Phosphorylase Complex
Length = 796
Score = 27.3 bits (59), Expect = 3.0, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 80 KLSDKDLDRNDECGICMENCTKMVLPNCGHS 110
K +D D R ++ GI E TK++ PN H+
Sbjct: 232 KFNDGDFLRAEQQGINAEKLTKVLYPNDNHT 262
>pdb|1QM5|A Chain A, Phosphorylase Recognition And Phosphorylysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
pdb|1QM5|B Chain B, Phosphorylase Recognition And Phosphorylysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
pdb|1E4O|A Chain A, Phosphorylase Recognition And Phosphorolysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
pdb|1E4O|B Chain B, Phosphorylase Recognition And Phosphorolysis Of Its
Oligosaccharide Substrate: Answers To A Long Outstanding
Question
Length = 796
Score = 27.3 bits (59), Expect = 3.0, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 80 KLSDKDLDRNDECGICMENCTKMVLPNCGHS 110
K +D D R ++ GI E TK++ PN H+
Sbjct: 232 KFNDGDFLRAEQQGINAEKLTKVLYPNDNHT 262
>pdb|1AHP|A Chain A, Oligosaccharide Substrate Binding In Escherichia Coli
Maltodextrin Phsphorylase
pdb|1AHP|B Chain B, Oligosaccharide Substrate Binding In Escherichia Coli
Maltodextrin Phsphorylase
Length = 797
Score = 27.3 bits (59), Expect = 3.0, Method: Composition-based stats.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 80 KLSDKDLDRNDECGICMENCTKMVLPNCGHS 110
K +D D R ++ GI E TK++ PN H+
Sbjct: 233 KFNDGDFLRAEQQGINAEKLTKVLYPNDNHT 263
>pdb|4HLB|A Chain A, Crystal Structure Of A Hypothetical Protein (Despig_01740)
From Desulfovibrio Piger Atcc 29098 At 1.80 A Resolution
Length = 115
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 8/66 (12%)
Query: 15 VNVQVYVDGMP-ALSSKERKATLREFYAIIYPSLRQLESEFSELED-------NSKRDQC 66
V+V Y G+ + +RK T EF AI S+R+L+ F +D + K+D
Sbjct: 44 VDVAAYAKGIDIVFVAADRKXTRAEFSAIASRSIRELKERFGFDKDVPIGAVLDYKKDAA 103
Query: 67 SEISSR 72
++ +R
Sbjct: 104 TDTRTR 109
>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 = 3.3, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 91 ECGICMENCT----KMVLPNCGHSLCVNCFHDWNARS 123
EC ICME+ T + L +CGH++C C A S
Sbjct: 17 ECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASS 53
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 82 SDKDLDRNDECGICMENCTKMVLPNCGHSLCVNCFHDWN 120
S ++ C IC+E T+ + +CGHSLC C N
Sbjct: 5 SSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSN 43
>pdb|3U5E|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|MM Chain m, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|MM Chain m, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 128
Score = 26.6 bits (57), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 40/96 (41%), Gaps = 19/96 (19%)
Query: 50 LESEFSELEDNSKR----------DQCSEISSRKRVEERRKLSDKDLDRNDECGICMENC 99
LE E S+ DN K DQ I + K++E+ R LSD ++ + + +
Sbjct: 15 LEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLR 74
Query: 100 TKMVLP---------NCGHSLCVNCFHDWNARSQSC 126
++ P NC S+C C+ R+ +C
Sbjct: 75 GGIIEPSLKALASKYNCDKSVCRKCYARLPPRATNC 110
>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 = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 92 CGICMENCTKMVLPNCGHSLCVNCFHDWNARS 123
C IC+E T+ + +CGHS C C + +S
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTANHKKS 53
>pdb|2B7J|A Chain A, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|B Chain B, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|C Chain C, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7J|D Chain D, Crystal Structure Of Yeast Sco1 With Copper Bound
pdb|2B7K|A Chain A, Crystal Structure Of Yeast Sco1
pdb|2B7K|B Chain B, Crystal Structure Of Yeast Sco1
pdb|2B7K|C Chain C, Crystal Structure Of Yeast Sco1
pdb|2B7K|D Chain D, Crystal Structure Of Yeast Sco1
Length = 200
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/63 (22%), Positives = 33/63 (52%), Gaps = 4/63 (6%)
Query: 2 ICFWFCVIETKLFVNVQ-VYVDGMPALSSKERKATLREFYAIIYPSLRQLESEFSELEDN 60
+ W + +K + +Q +++ PA ++ A L+E+ + +PS+ L F E+++
Sbjct: 64 LGLWLNTLSSKYGITLQPLFITCDPA---RDSPAVLKEYLSDFHPSILGLTGTFDEVKNA 120
Query: 61 SKR 63
K+
Sbjct: 121 CKK 123
>pdb|3FZG|A Chain A, Structure Of The 16s Rrna Methylase Arma
Length = 200
Score = 25.8 bits (55), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 17/25 (68%)
Query: 28 SSKERKATLREFYAIIYPSLRQLES 52
S+ ER ATL +FY ++ +++ + S
Sbjct: 28 STNERVATLNDFYTYVFGNIKHVSS 52
>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 = 25.8 bits (55), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 9/32 (28%), Positives = 15/32 (46%)
Query: 84 KDLDRNDECGICMENCTKMVLPNCGHSLCVNC 115
+ L C +C++ +V CGH +C C
Sbjct: 8 RRLQEERTCKVCLDRAVSIVFVPCGHLVCAEC 39
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 25.8 bits (55), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 15/34 (44%)
Query: 83 DKDLDRNDECGICMENCTKMVLPNCGHSLCVNCF 116
D L+ EC IC+ + V CGH C C
Sbjct: 19 DPPLESKYECPICLMALREAVQTPCGHRFCKACI 52
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 0.135 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,562,658
Number of Sequences: 62578
Number of extensions: 117374
Number of successful extensions: 535
Number of sequences better than 100.0: 53
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 497
Number of HSP's gapped (non-prelim): 53
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
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: 46 (22.3 bits)