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= 024699
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CH7|A Chain A, Crystal Structure Of The Cytoplasmic Domain Of A Bacterial
Chemoreceptor From Thermotoga Maritima
Length = 309
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 29/152 (19%), Positives = 70/152 (46%), Gaps = 22/152 (14%)
Query: 27 RGLAPMHFHPMTLEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDE--------- 77
RG A + L EE + + R+++E R +D + E+TA +E
Sbjct: 159 RGFAVVADEIRKLAEESQQASENVRRVVNEIRSIAEDAGKVSSEITARVEEGTKLADEAD 218
Query: 78 ---------IHRLGQIIPKLRADKEAHTRELFDRGLKLEVELRASEPVRAEVVQLRAEVQ 128
+ R+ +++ + A E T + + + + +E + V ++ A +Q
Sbjct: 219 EKLNSIVGAVERINEMLQNIAAAIEEQTAAVDEITTAMTENAKNAEEITNSVKEVNARLQ 278
Query: 129 KLNSSRQELTTQIKGLTKDVNRLEAENKQLIA 160
++++S +E+T++++ + ++V L K+++A
Sbjct: 279 EISASTEEVTSRVQTIRENVQML----KEIVA 306
>pdb|3S6O|A Chain A, Crystal Structure Of A Polysaccharide Deacetylase Family
Protein From Burkholderia Pseudomallei
pdb|3S6O|B Chain B, Crystal Structure Of A Polysaccharide Deacetylase Family
Protein From Burkholderia Pseudomallei
pdb|3S6O|C Chain C, Crystal Structure Of A Polysaccharide Deacetylase Family
Protein From Burkholderia Pseudomallei
pdb|3S6O|D Chain D, Crystal Structure Of A Polysaccharide Deacetylase Family
Protein From Burkholderia Pseudomallei
Length = 321
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 39/105 (37%), Gaps = 23/105 (21%)
Query: 7 ISRHPDSARGFRDGPRPVLTRGLAPMHFHPMTLEEEIEIQRREM---------------- 50
I RHP+ AR F + + G +H+ MT E E E R M
Sbjct: 111 IERHPELARAFVELGHEIACHGWRWIHYQDMTPEREAEHMRLGMEAIERVTGVRPLGWYT 170
Query: 51 -------HRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKL 88
HR+++E + D+ H +L D G +P+L
Sbjct: 171 GRDSPNTHRLVAEYGGFLYDSDHYGDDLPFWMDVEVSGGASVPQL 215
>pdb|1XZP|A Chain A, Structure Of The Gtp-Binding Protein Trme From Thermotoga
Maritima
pdb|1XZQ|A Chain A, Structure Of The Gtp-binding Protein Trme From Thermotoga
Maritima Complexed With 5-formyl-thf
Length = 482
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 36/134 (26%), Positives = 65/134 (48%), Gaps = 11/134 (8%)
Query: 39 LEEEIEIQRREMHRIISENRHAIDDNTHLQRELTASKDEIHRLGQIIPKLRAD-KEAHTR 97
L + ++ RRE+ +++E R +D ++ T + + + RL +I KL + K+A
Sbjct: 181 LRDFVDSLRRELIEVLAEIRVELDYPDEIE---TNTGEVVTRLERIKEKLTEELKKADAG 237
Query: 98 ELFDRGLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLTKDVNRLEAENKQ 157
L +RGL++ + +P + L + LN R + T I G T+DV E +
Sbjct: 238 ILLNRGLRMVI---VGKPNVGKSTLLN---RLLNEDRA-IVTDIPGTTRDVISEEIVIRG 290
Query: 158 LIAMRADIDGIRSE 171
++ D G+RSE
Sbjct: 291 ILFRIVDTAGVRSE 304
>pdb|2M38|A Chain A, Ptb Domain Of Aida1
Length = 153
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 103 GLKLEVELRASEPVRAEVVQLRAEVQKLNSSRQELTTQIKGLT-KDVNRLEAENKQLIA 160
G L ELR +E + ++RA QK +++ T I ++ K V ++A NK +IA
Sbjct: 27 GSMLIKELRGTESTQDACAKMRANCQKSTEQMKKVPTIILSVSAKGVKFIDATNKNIIA 85
>pdb|3R64|A Chain A, Crystal Structure Of A Nad-Dependent Benzaldehyde
Dehydrogenase From Corynebacterium Glutamicum
pdb|3R64|B Chain B, Crystal Structure Of A Nad-Dependent Benzaldehyde
Dehydrogenase From Corynebacterium Glutamicum
pdb|3R64|C Chain C, Crystal Structure Of A Nad-Dependent Benzaldehyde
Dehydrogenase From Corynebacterium Glutamicum
pdb|3R64|D Chain D, Crystal Structure Of A Nad-Dependent Benzaldehyde
Dehydrogenase From Corynebacterium Glutamicum
Length = 508
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 16/81 (19%)
Query: 39 LEEEIEIQRREMHRIISENR--------HAIDDNTHLQRELTASKDEIHRLGQIIPKLRA 90
L+E+IE+ ++E + E H D T ++ +++EI G +I L+A
Sbjct: 345 LKEKIELAKKEGATVQVEGPIEGRLVHPHVFSDVT---SDMEIAREEI--FGPLISVLKA 399
Query: 91 DKEAHTRELF---DRGLKLEV 108
D EAH EL D GL V
Sbjct: 400 DDEAHAAELANASDFGLSAAV 420
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
0.317 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,651,021
Number of Sequences: 62578
Number of extensions: 291307
Number of successful extensions: 1008
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 50
Number of HSP's that attempted gapping in prelim test: 971
Number of HSP's gapped (non-prelim): 83
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)