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= 038592
(478 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IY9|A Chain A, Crystal Structure Of Spermidine Synthase
pdb|1IY9|B Chain B, Crystal Structure Of Spermidine Synthase
pdb|1IY9|C Chain C, Crystal Structure Of Spermidine Synthase
pdb|1IY9|D Chain D, Crystal Structure Of Spermidine Synthase
Length = 275
Score = 32.0 bits (71), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 53/136 (38%), Gaps = 10/136 (7%)
Query: 318 GDAIEFLEKLARQIVGKNPDSFGACSLKDGNFLDNSDRVDNKFDVIMVDLDSGDARNGTS 377
G IE+ +K I GK D + DG F+ + + +N++DVIMVD
Sbjct: 109 GKVIEYSKKFLPSIAGKLDDPRVDVQVDDG-FMHIA-KSENQYDVIMVD------STEPV 160
Query: 378 APPVEFVRKDVLLAARLILSDFGIFVMNVIPPNRSFYDMLIQEFRDVFQELYEIDVGNEE 437
P V K L + GIFV N F LI + +E++ I
Sbjct: 161 GPAVNLFTKGFYAGIAKALKEDGIFVAQT--DNPWFTPELITNVQRDVKEIFPITKLYTA 218
Query: 438 NFVLIATGLSIVSSGS 453
N +GL + GS
Sbjct: 219 NIPTYPSGLWTFTIGS 234
>pdb|4AV3|A Chain A, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase With Metal Ions In
Active Site
pdb|4AV3|B Chain B, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase With Metal Ions In
Active Site
pdb|4AV6|A Chain A, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase At 4 A In Complex With
Phosphate And Magnesium
pdb|4AV6|B Chain B, Crystal Structure Of Thermotoga Maritima Sodium Pumping
Membrane Integral Pyrophosphatase At 4 A In Complex With
Phosphate And Magnesium
Length = 735
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 3/82 (3%)
Query: 380 PVEFVRKDVLLAARLILSD-FGIFVMNVIPPNRSFYDMLIQEFRDVFQELYEIDVGNEEN 438
P +F+ K + +++S+ + + +V PP + +L F D F LY + +
Sbjct: 399 PTQFLGKSSIEGTGMVISNGLSLGMKSVFPPTLTL--VLGILFADYFAGLYGVAIAALGM 456
Query: 439 FVLIATGLSIVSSGSDCENAFG 460
+AT +S+ S G +NA G
Sbjct: 457 LSFVATSVSVDSYGPIADNAGG 478
>pdb|3P02|A Chain A, Crystal Structure Of A Protein Of Unknown Function
(Bacova_00267) From Bacteroides Ovatus At 1.55 A
Resolution
Length = 317
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/63 (34%), Positives = 30/63 (47%), Gaps = 4/63 (6%)
Query: 121 LEDSVKPLVIALSRKFCFDKNGIYNV-PLLSYEDNVVSSVVLEKCVGDFAGEMLVEDVEI 179
L+DS K AL K C D NG Y V P Y V+ ++ + G F+G L+
Sbjct: 116 LDDSQK---WALPLKVCEDANGTYAVNPRKYYRTAVLRPILFNEFSGRFSGSSLLGTXAG 172
Query: 180 ESE 182
ES+
Sbjct: 173 ESD 175
>pdb|1VE3|A Chain A, Crystal Structure Of Ph0226 Protein From Pyrococcus
Horikoshii Ot3
pdb|1VE3|B Chain B, Crystal Structure Of Ph0226 Protein From Pyrococcus
Horikoshii Ot3
Length = 227
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 278 SFLRTQLDFEVVGVEMDEVVLRVARQYFGLEDGEFLQVSVGDA 320
SFL FEVVGV++ E +R AR+Y + ++ VGDA
Sbjct: 53 SFLLEDYGFEVVGVDISEDXIRKAREYAKSRESN-VEFIVGDA 94
>pdb|3FG9|A Chain A, The Crystal Structure Of An Universal Stress Protein Uspa
Family Protein From Lactobacillus Plantarum Wcfs1
pdb|3FG9|B Chain B, The Crystal Structure Of An Universal Stress Protein Uspa
Family Protein From Lactobacillus Plantarum Wcfs1
pdb|3FG9|C Chain C, The Crystal Structure Of An Universal Stress Protein Uspa
Family Protein From Lactobacillus Plantarum Wcfs1
pdb|3FG9|D Chain D, The Crystal Structure Of An Universal Stress Protein Uspa
Family Protein From Lactobacillus Plantarum Wcfs1
pdb|3FG9|E Chain E, The Crystal Structure Of An Universal Stress Protein Uspa
Family Protein From Lactobacillus Plantarum Wcfs1
pdb|3FG9|F Chain F, The Crystal Structure Of An Universal Stress Protein Uspa
Family Protein From Lactobacillus Plantarum Wcfs1
Length = 156
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 10/68 (14%)
Query: 123 DSVKPLVIALSRKFCFD----------KNGIYNVPLLSYEDNVVSSVVLEKCVGDFAGEM 172
DS+ P I RK D + G+ V L YE V V+LE+ + +F ++
Sbjct: 63 DSLTPSKIQAKRKHVEDVVAEYVQLAEQRGVNQVEPLVYEGGDVDDVILEQVIPEFKPDL 122
Query: 173 LVEDVEIE 180
LV + E
Sbjct: 123 LVTGADTE 130
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
0.323 0.141 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,707,666
Number of Sequences: 62578
Number of extensions: 505073
Number of successful extensions: 1032
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1030
Number of HSP's gapped (non-prelim): 6
length of query: 478
length of database: 14,973,337
effective HSP length: 103
effective length of query: 375
effective length of database: 8,527,803
effective search space: 3197926125
effective search space used: 3197926125
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: 53 (25.0 bits)