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= 014817
(418 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 87.0 bits (214), Expect = 2e-17, Method: Composition-based stats.
Identities = 39/74 (52%), Positives = 50/74 (67%)
Query: 11 SVQIPYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPN 70
S + P +FRCPISLELM DPV V TGQTY+R SI+ W+ G+ TCP ++ L L PN
Sbjct: 2 SPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAGLTPN 61
Query: 71 HTLRRLIQDWCVAN 84
+ L+ LI WC +N
Sbjct: 62 YVLKSLIALWCESN 75
>pdb|2F42|A Chain A, Dimerization And U-Box Domains Of Zebrafish C-Terminal Of
Hsp70 Interacting Protein
Length = 179
Score = 52.8 bits (125), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 29/72 (40%), Positives = 38/72 (52%)
Query: 13 QIPYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHT 72
+IP + IS ELM +P +G TYDR IE + PVTRSPLT LIPN
Sbjct: 102 EIPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLA 161
Query: 73 LRRLIQDWCVAN 84
++ +I + N
Sbjct: 162 MKEVIDAFIQEN 173
>pdb|2C2L|A Chain A, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|B Chain B, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|C Chain C, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
pdb|2C2L|D Chain D, Crystal Structure Of The Chip U-Box E3 Ubiquitin Ligase
Length = 281
Score = 51.6 bits (122), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 37/71 (52%)
Query: 14 IPYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHTL 73
IP + IS ELM +P +G TYDR IE + PVTRSPLT LIPN +
Sbjct: 205 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAM 264
Query: 74 RRLIQDWCVAN 84
+ +I + N
Sbjct: 265 KEVIDAFISEN 275
>pdb|2OXQ|C Chain C, Structure Of The Ubch5 :chip U-Box Complex
pdb|2OXQ|D Chain D, Structure Of The Ubch5 :chip U-Box Complex
Length = 80
Score = 51.6 bits (122), Expect = 9e-07, Method: Composition-based stats.
Identities = 29/72 (40%), Positives = 38/72 (52%)
Query: 13 QIPYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHT 72
+IP + IS ELM +P +G TYDR IE + PVTRSPLT LIPN
Sbjct: 9 EIPDYLCGKISFELMAEPCITPSGITYDRKDIEEHLQRVGHFDPVTRSPLTQDQLIPNLA 68
Query: 73 LRRLIQDWCVAN 84
++ +I + N
Sbjct: 69 MKEVIDAFIQEN 80
>pdb|2C2V|S Chain S, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|T Chain T, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|U Chain U, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
pdb|2C2V|V Chain V, Crystal Structure Of The Chip-Ubc13-Uev1a Complex
Length = 78
Score = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 29/71 (40%), Positives = 37/71 (52%)
Query: 14 IPYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHTL 73
IP + IS ELM +P +G TYDR IE + PVTRSPLT LIPN +
Sbjct: 2 IPDYLCGKISFELMREPCITPSGITYDRKDIEEHLQRVGHFNPVTRSPLTQEQLIPNLAM 61
Query: 74 RRLIQDWCVAN 84
+ +I + N
Sbjct: 62 KEVIDAFISEN 72
>pdb|1WGM|A Chain A, Solution Structure Of The U-Box In Human Ubiquitin
Conjugation Factor E4a
Length = 98
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/70 (37%), Positives = 36/70 (51%), Gaps = 2/70 (2%)
Query: 17 HFRCPISLELMCDPVTVCTGQ-TYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHTLRR 75
F PI LMCDPV + + + T DR +I + + + T P RSPLT + PN L+
Sbjct: 22 EFLDPIMSTLMCDPVVLPSSRVTVDRSTIARHLLS-DQTDPFNRSPLTMDQIRPNTELKE 80
Query: 76 LIQDWCVANR 85
IQ W +
Sbjct: 81 KIQRWLAERK 90
>pdb|2KR4|A Chain A, U-Box Domain Of The E3 Ubiquitin Ligase E4b
Length = 85
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 40/85 (47%), Gaps = 3/85 (3%)
Query: 2 PGSLEPLDLSVQIPYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSP 61
PGS E +D S P FR P+ LM DPV + +G DR SI + T P R
Sbjct: 1 PGSAE-IDYS-DAPDEFRDPLMDTLMTDPVRLPSGTVMDR-SIILRHLLNSPTDPFNRQM 57
Query: 62 LTDFTLIPNHTLRRLIQDWCVANRS 86
LT+ L P L+ IQ W +S
Sbjct: 58 LTESMLEPVPELKEQIQAWMREKQS 82
>pdb|2KRE|A Chain A, Solution Structure Of E4bUFD2A U-Box Domain
pdb|3L1X|A Chain A, Crystal Structure Of U-Box Domain Of Human E4b Ubiquitin
Ligase
pdb|3L1Z|B Chain B, Crystal Structure Of The U-Box Domain Of Human E4b
Ubiquitin Ligase In Complex With Ubch5c E2 Ubiquitin
Conjugating Enzyme
Length = 100
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 15 PYHFRCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHTLR 74
P FR P+ LM DPV + +G DR SI + T P R LT+ L P L+
Sbjct: 27 PDEFRDPLMDTLMTDPVRLPSGTIMDR-SIILRHLLNSPTDPFNRQTLTESMLEPVPELK 85
Query: 75 RLIQDWC 81
IQ W
Sbjct: 86 EQIQAWM 92
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 31.6 bits (70), Expect = 0.88, Method: Composition-based stats.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 20 CPISLELMCDPVTVCTGQTYDRPSI----ESWVAT-GNTTCPVTRSPLTDFTLIPNHTLR 74
CPI LEL+ +PV+ ++ R I ES T G CPV R P L PN +
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLKPNLHVA 81
Query: 75 RLIQ 78
+++
Sbjct: 82 NIVE 85
>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 = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 17/72 (23%), Positives = 35/72 (48%), Gaps = 5/72 (6%)
Query: 12 VQIPYHFRCPISLELMCDPVTVCTGQTYDRPSI-----ESWVATGNTTCPVTRSPLTDFT 66
V + CPI LEL+ P+++ G ++ + + +S + G ++CPV R
Sbjct: 14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN 73
Query: 67 LIPNHTLRRLIQ 78
+ PN + +++
Sbjct: 74 IRPNRHVANIVE 85
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 19 RCPISLELMCDPVTVCTGQTYDRPSIESWVATGNTTCPVTRSPLTDFTLIPNHTLR 74
+C I +E++ +PVT+ T +P +S V + CP R ++ +T HT R
Sbjct: 17 QCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSWTRY--HTRR 70
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
0.320 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,727,918
Number of Sequences: 62578
Number of extensions: 326246
Number of successful extensions: 747
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 737
Number of HSP's gapped (non-prelim): 12
length of query: 418
length of database: 14,973,337
effective HSP length: 101
effective length of query: 317
effective length of database: 8,652,959
effective search space: 2742988003
effective search space used: 2742988003
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: 53 (25.0 bits)