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= 016646
(385 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FZ1|A Chain A, Structure Of Empty Head Turnip Yellow Mosaic Virus (atc)
At 100 K
pdb|2FZ1|B Chain B, Structure Of Empty Head Turnip Yellow Mosaic Virus (atc)
At 100 K
pdb|2FZ1|C Chain C, Structure Of Empty Head Turnip Yellow Mosaic Virus (atc)
At 100 K
pdb|2FZ2|A Chain A, Structure Of Turnip Yellow Mosaic Virus At 100 K
pdb|2FZ2|B Chain B, Structure Of Turnip Yellow Mosaic Virus At 100 K
pdb|2FZ2|C Chain C, Structure Of Turnip Yellow Mosaic Virus At 100 K
Length = 189
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 34/76 (44%), Gaps = 11/76 (14%)
Query: 226 STIFGLFYCGYLPCFWVKLRCGLSAPALNTGIGVSWPILLGGLPHWTAFGRTQLTSISPK 285
ST+ + L WV + L APA T +GV W +P + TQ+T
Sbjct: 60 STLTTFYRHASLESLWVTIHPTLQAPAFPTTVGVCW------VPAQSPVTPTQIT----- 108
Query: 286 KTWEGTIVGLGGCIAT 301
KT+ G I +GG I T
Sbjct: 109 KTYGGQIFCIGGAIQT 124
>pdb|1W39|A Chain A, Crystal Structure Of An Artificial Top Component Of Turnip
Yellow Mosaic Virus
pdb|1W39|B Chain B, Crystal Structure Of An Artificial Top Component Of Turnip
Yellow Mosaic Virus
pdb|1W39|C Chain C, Crystal Structure Of An Artificial Top Component Of Turnip
Yellow Mosaic Virus
Length = 189
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 11/76 (14%)
Query: 226 STIFGLFYCGYLPCFWVKLRCGLSAPALNTGIGVSWPILLGGLPHWTAFGRTQLTSISPK 285
ST+ + L WV + L AP T +GV W +P + Q+T
Sbjct: 60 STLTTFYRHASLESLWVTIHPTLQAPTFPTTVGVCW------VPAQSPVTPAQIT----- 108
Query: 286 KTWEGTIVGLGGCIAT 301
KT+ G I +GG I T
Sbjct: 109 KTYGGQIFCIGGAIQT 124
>pdb|1AUY|A Chain A, Turnip Yellow Mosaic Virus
pdb|1AUY|B Chain B, Turnip Yellow Mosaic Virus
pdb|1AUY|C Chain C, Turnip Yellow Mosaic Virus
Length = 190
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 32/76 (42%), Gaps = 11/76 (14%)
Query: 226 STIFGLFYCGYLPCFWVKLRCGLSAPALNTGIGVSWPILLGGLPHWTAFGRTQLTSISPK 285
ST+ + L WV + L AP T +GV W +P + Q+T
Sbjct: 61 STLTTFYRHASLESLWVTIHPTLQAPTFPTTVGVCW------VPAQSPVTPAQIT----- 109
Query: 286 KTWEGTIVGLGGCIAT 301
KT+ G I +GG I T
Sbjct: 110 KTYGGQIFCIGGAIQT 125
>pdb|3UWD|A Chain A, Crystal Structure Of Phosphoglycerate Kinase From Bacillus
Anthracis
Length = 394
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 23/37 (62%), Gaps = 3/37 (8%)
Query: 343 AGVKDSGSLIPGHGGILDRVDSYIFTGALAYSFVKTF 379
A VKD LI H +LD+VD+ I G LAY+FVK
Sbjct: 196 AKVKDKIGLIR-H--LLDKVDNLIIGGGLAYTFVKAL 229
>pdb|1PHP|A Chain A, Structure Of The Adp Complex Of The 3-Phosphoglycerate
Kinase From Bacillus Stearothermophilus At 1.65
Angstroms
Length = 394
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 343 AGVKDSGSLIPGHGGILDRVDSYIFTGALAYSFVKTF 379
A VKD +I +L++VD+ I G LAY+FVK
Sbjct: 196 AKVKDKIGVIDN---LLEKVDNLIIGGGLAYTFVKAL 229
>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|B Chain B, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|C Chain C, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|D Chain D, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|E Chain E, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|F Chain F, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|G Chain G, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|H Chain H, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
Length = 348
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 57 LRVRQTGIDTNRRMISAVARAEPDHLDDGNLKEGI 91
LRVRQ GI MI + D LDD + + G+
Sbjct: 85 LRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGV 119
>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
pdb|3APZ|B Chain B, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
Length = 348
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 18/35 (51%)
Query: 57 LRVRQTGIDTNRRMISAVARAEPDHLDDGNLKEGI 91
LRVRQ GI MI + D LDD + + G+
Sbjct: 85 LRVRQRGIAEITEMIHVASLLHDDVLDDADTRRGV 119
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 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,676,838
Number of Sequences: 62578
Number of extensions: 359767
Number of successful extensions: 882
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 879
Number of HSP's gapped (non-prelim): 8
length of query: 385
length of database: 14,973,337
effective HSP length: 101
effective length of query: 284
effective length of database: 8,652,959
effective search space: 2457440356
effective search space used: 2457440356
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: 52 (24.6 bits)