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= psy12283
(788 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R17|C Chain C, Functional Architecture Of The Retromer Cargo-Recognition
Complex
pdb|2R17|D Chain D, Functional Architecture Of The Retromer Cargo-Recognition
Complex
Length = 298
Score = 410 bits (1055), Expect = e-114, Method: Compositional matrix adjust.
Identities = 195/291 (67%), Positives = 236/291 (81%), Gaps = 2/291 (0%)
Query: 484 LLGRLVHQFKSDVPDQQYLILSTARKHFQAGGKKRIKHTLPPLVFQAYQLATQFSALREE 543
L+GR +H +S+ PDQQYLIL+TARKHF AGG +RI+ TLPPLVF AYQLA ++ +
Sbjct: 8 LVGRFIHLLRSEDPDQQYLILNTARKHFGAGGNQRIRFTLPPLVFAAYQLAFRYKENSKV 67
Query: 544 DEMWSKKCSKIFRFCHQIILSLIKAELAELPLRLFLQGAMTIGSIDFENHETISYEFISQ 603
D+ W KKC KIF F HQ I +LIKAELAELPLRLFLQGA+ G I FENHET++YEF SQ
Sbjct: 68 DDKWEKKCQKIFSFAHQTISALIKAELAELPLRLFLQGALAAGEIGFENHETVAYEFXSQ 127
Query: 604 ALSLYEEEISESKCQLAAITLLVGTFEKMSCFGEENAEPIRTQSALAASKLFKKPDQCSG 663
A SLYE+EIS+SK QLAAITL++GTFE+ CF EEN EP+RTQ ALAASKL KKPDQ
Sbjct: 128 AFSLYEDEISDSKAQLAAITLIIGTFERXKCFSEENHEPLRTQCALAASKLLKKPDQGRA 187
Query: 664 VCTCSHLFWSGKNS--QGEEIRDGKRVLECLKKGVRIASQCMDMSVQVQLFIELLNHYIY 721
V TC+HLFWSG+N+ GEE+ GKRV ECLKK ++IA+QC D S+QVQLFIE+LN YIY
Sbjct: 188 VSTCAHLFWSGRNTDKNGEELHGGKRVXECLKKALKIANQCXDPSLQVQLFIEILNRYIY 247
Query: 722 YFEKKNEHITVAMLNQLIGKIRDELANLESNEETEQISKHFTNTLFHLRNR 772
++EK+N+ +T+ +LNQLI KIR++L NLES+EETEQI+KHF NTL HLR R
Sbjct: 248 FYEKENDAVTIQVLNQLIQKIREDLPNLESSEETEQINKHFHNTLEHLRLR 298
>pdb|1TXL|A Chain A, Crystal Structure Of Metal-Binding Protein Yoda From E.
Coli, Pfam Duf149
Length = 215
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 12/88 (13%)
Query: 684 DGKRVL--ECLKKGVRIASQCMDMSVQVQLFIELLNHYIYYFEKKNEHITVAMLNQLIGK 741
DG ++L + KKGVR +C D + +I+ +H I +K+ H + M N
Sbjct: 130 DGYKILTYKSGKKGVRYLFECKDPESKAPKYIQFSDHII--APRKSSHFHIFMGNDSQQS 187
Query: 742 IRDELAN--------LESNEETEQISKH 761
+ +E+ N L S E E++ H
Sbjct: 188 LLNEMENWPTYYPYQLSSEEVVEEMMSH 215
>pdb|1OEE|A Chain A, Yoda From Escherichia Coli Crystallised With Cadmium Ions
pdb|1OEJ|A Chain A, Yoda From Escherichia Coli Crystallised With No Added Ions
pdb|1OEK|A Chain A, Yoda From Escherichia Coli Crystallised With Zinc Ions
Length = 193
Score = 30.8 bits (68), Expect = 2.8, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 12/88 (13%)
Query: 684 DGKRVL--ECLKKGVRIASQCMDMSVQVQLFIELLNHYIYYFEKKNEHITVAMLNQLIGK 741
DG ++L + KKGVR +C D + +I+ +H I +K+ H + M N
Sbjct: 108 DGYKILTYKSGKKGVRYLFECKDPESKAPKYIQFSDHIIA--PRKSSHFHIFMGNDSQQS 165
Query: 742 IRDELAN--------LESNEETEQISKH 761
+ +E+ N L S E E++ H
Sbjct: 166 LLNEMENWPTYYPYQLSSEEVVEEMMSH 193
>pdb|1S7D|A Chain A, Crystal Structure Of Refined Tetragonal Crystal Of Yoda
From Escherichia Coli
Length = 216
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 12/88 (13%)
Query: 684 DGKRVL--ECLKKGVRIASQCMDMSVQVQLFIELLNHYIYYFEKKNEHITVAMLNQLIGK 741
DG ++L + KKGVR +C D + +I+ +H I +K+ H + M N
Sbjct: 131 DGYKILTYKSGKKGVRYLFECKDPESKAPKYIQFSDHII--APRKSSHFHIFMGNDSQQS 188
Query: 742 IRDELAN--------LESNEETEQISKH 761
+ +E+ N L S E E++ H
Sbjct: 189 LLNEMENWPTYYPYQLSSEEVVEEMMSH 216
>pdb|3D2F|A Chain A, Crystal Structure Of A Complex Of Sse1p And Hsp70
pdb|3D2F|C Chain C, Crystal Structure Of A Complex Of Sse1p And Hsp70
Length = 675
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 723 FEKKNEHITVAMLNQLIGKIRDELANLES-------NEETEQISKHFTNTLFHLRNRQEG 775
F KN ++ N+ I++ +ANL+ + + EQ SKHFT+ L L +++ G
Sbjct: 42 FGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTG 101
Query: 776 PPV 778
V
Sbjct: 102 AEV 104
>pdb|3D2E|A Chain A, Crystal Structure Of A Complex Of Sse1p And Hsp70,
Selenomethionine- Labeled Crystals
pdb|3D2E|C Chain C, Crystal Structure Of A Complex Of Sse1p And Hsp70,
Selenomethionine- Labeled Crystals
Length = 675
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 723 FEKKNEHITVAMLNQLIGKIRDELANLES-------NEETEQISKHFTNTLFHLRNRQEG 775
F KN ++ N+ I++ +ANL+ + + EQ SKHFT+ L L +++ G
Sbjct: 42 FGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTG 101
Query: 776 PPV 778
V
Sbjct: 102 AEV 104
>pdb|3C7N|A Chain A, Structure Of The Hsp110:hsc70 Nucleotide Exchange Complex
Length = 668
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 723 FEKKNEHITVAMLNQLIGKIRDELANLES-------NEETEQISKHFTNTLFHLRNRQEG 775
F KN ++ N+ I++ +ANL+ + + EQ SKHFT+ L L +++ G
Sbjct: 44 FGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTG 103
Query: 776 PPV 778
V
Sbjct: 104 AEV 106
>pdb|2QXL|A Chain A, Crystal Structure Analysis Of Sse1, A Yeast Hsp110
pdb|2QXL|B Chain B, Crystal Structure Analysis Of Sse1, A Yeast Hsp110
Length = 658
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 7/63 (11%)
Query: 723 FEKKNEHITVAMLNQLIGKIRDELANLES-------NEETEQISKHFTNTLFHLRNRQEG 775
F KN ++ N+ I++ +ANL+ + + EQ SKHFT+ L L +++ G
Sbjct: 41 FGPKNRYLGETGKNKQTSNIKNTVANLKRIIGLDYHHPDFEQESKHFTSKLVELDDKKTG 100
Query: 776 PPV 778
V
Sbjct: 101 AEV 103
>pdb|3DWL|D Chain D, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
pdb|3DWL|I Chain I, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
Length = 317
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 12/61 (19%)
Query: 314 EFNSLF--ETFSEQVASIVQSRIDMPAEDI--VALQVS--------LINLALKCYPDKVD 361
++N++F E +E+ +S S ID D V +S LI+L++KCYP+ V+
Sbjct: 5 DYNNIFIYELLTERFSSENPSSIDQVVTDFDGVTFHISTPEEKTKILISLSMKCYPELVN 64
Query: 362 Y 362
Y
Sbjct: 65 Y 65
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
0.321 0.136 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,061,284
Number of Sequences: 62578
Number of extensions: 746910
Number of successful extensions: 1694
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1684
Number of HSP's gapped (non-prelim): 18
length of query: 788
length of database: 14,973,337
effective HSP length: 107
effective length of query: 681
effective length of database: 8,277,491
effective search space: 5636971371
effective search space used: 5636971371
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)