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= 020004
(332 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YB1|A Chain A, Structure Of An Amidohydrolase From Chromobacterium
Violaceum (Efi Target Efi-500202) With Bound Mn, Amp And
Phosphate.
pdb|2YB4|A Chain A, Structure Of An Amidohydrolase From Chromobacterium
Violaceum (Efi Target Efi-500202) With Bound So4, No
Metal
Length = 292
Score = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 58/192 (30%), Positives = 86/192 (44%), Gaps = 13/192 (6%)
Query: 8 TDHDTMSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSKYEE 67
TDHD G+ EA A R G+ + GVE+S S VHI+ P++
Sbjct: 37 TDHDCTGGLAEAAAAAARRGIPFLNGVEVSV------SWGRHTVHIVGL--GIDPAE-PA 87
Query: 68 LENFLANIRDGRFLRAKDMIXXXXXXXXXXXWEHVAKIAGKGVAPGRLHVARAMVEAGHV 127
L L +IR+GR RA+ M ++ + R H AR +V++G V
Sbjct: 88 LAAGLKSIREGRLERARQMGASLEAAGIAGCFDGAMRWCDNPEMISRTHFARHLVDSGAV 147
Query: 128 ENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIRKL-- 185
++++ F +YL G P Y + E AV I GG+AV+AHP +I +L
Sbjct: 148 KDMRTVFRKYLTPGKPGYVSHQWASLEDAVGWIVGAGGMAVIAHPGRYDMGRTLIERLIL 207
Query: 186 --KDVGLHGLEV 195
+ G G+EV
Sbjct: 208 DFQAAGGQGIEV 219
>pdb|3E0F|A Chain A, Crystal Structure Of A Putative Metal-Dependent
Phosphoesterase (Bad_1165) From Bifidobacterium
Adolescentis Atcc 15703 At 2.40 A Resolution
pdb|3O0F|A Chain A, Crystal Structure Of A Putative Metal-Dependent
Phosphoesterase (Bad_1165) From Bifidobacterium
Adolescentis Atcc 15703 At 1.94 A Resolution
Length = 301
Score = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 57/201 (28%), Positives = 85/201 (42%), Gaps = 21/201 (10%)
Query: 5 LALTDHDTMSGIPEAIETARRFGMKIIPGVEISTIFCQRGSESEEPVHILAYYSSCGPSK 64
+A+ DHDT +G EA E + G+ ++ G EI+ + + + VH LA+ PS
Sbjct: 45 VAIADHDTTAGWDEATEASEEIGLPLLLGTEITAV------DEDVSVHXLAFQYD--PSN 96
Query: 65 YEELENFLANIRDGRFLRAKDMIXXXXXXXXXXXWEHVAKIA-GKGVAPGRLHVARAMVE 123
E + + AN R R R K + + +A++ G+ GR H+A A+V
Sbjct: 97 -EHISSXFANTRAARLRRTKRXVERLSQDFPITWDDVLAQVKEGERTTIGRPHIADALVA 155
Query: 124 AGHVENLKQAFARYLYDGGPAYSTGSEPLAEVAVQLIHRTGGLAVLAHPWALKNPAAIIR 183
AG E AFA + Y P + + GG+ V AH +P R
Sbjct: 156 AGVYETRSDAFADAVSAKSKYYIPTPSPSTHEVIAAVKGAGGVVVAAH---AGDPQRNRR 212
Query: 184 KLKDV--------GLHGLEVY 196
L D GL GLEV+
Sbjct: 213 LLSDEQLDAXIADGLDGLEVW 233
>pdb|3F2B|A Chain A, Dna Polymerase Polc From Geobacillus Kaustophilus Complex
With Dna, Dgtp, Mg And Zn
pdb|3F2C|A Chain A, Dna Polymerase Polc From Geobacillus Kaustophilus Complex
With Dna, Dgtp And Mn
pdb|3F2D|A Chain A, Dna Polymerase Polc From Geobacillus Kaustophilus Complex
With Dna, Dgtp, Mn And Zn
Length = 1041
Score = 34.7 bits (78), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 5 LALTDHDTMSGIPEAIETARRFGMKIIPGVEISTI 39
+A+TDH + PEA A++ GMK+I G+E + +
Sbjct: 149 IAVTDHAVVQSFPEAYSAAKKHGMKVIYGLEANIV 183
>pdb|3D6I|A Chain A, Structure Of The Thioredoxin-Like Domain Of Yeast
Glutaredoxin 3
pdb|3D6I|B Chain B, Structure Of The Thioredoxin-Like Domain Of Yeast
Glutaredoxin 3
Length = 112
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 20/24 (83%)
Query: 255 CGAIKEILESYADEPSDSNLSHIT 278
C A+K++ E+ ++EPS+SN+S ++
Sbjct: 36 CKALKQVFEAISNEPSNSNVSFLS 59
>pdb|3EYW|A Chain A, Crystal Structure Of The C-terminal Domain Of E. Coli
Kefc In Complex With Keff
pdb|3EYW|B Chain B, Crystal Structure Of The C-terminal Domain Of E. Coli
Kefc In Complex With Keff
pdb|3L9W|A Chain A, Kefc C-Terminal Domain In Complex With Keff And Gsh
pdb|3L9W|B Chain B, Kefc C-Terminal Domain In Complex With Keff And Gsh
pdb|3L9X|A Chain A, Kefc C-Terminal Domain In Complex With Keff And Esg
pdb|3L9X|B Chain B, Kefc C-Terminal Domain In Complex With Keff And Esg
Length = 413
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 6/32 (18%)
Query: 2 VKVLALTDHDTMSGIPEAIETARRFGMKIIPG 33
VK++ L DHD P+ IET R+FGMK+ G
Sbjct: 28 VKMVVL-DHD-----PDHIETLRKFGMKVFYG 53
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
0.319 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,245,101
Number of Sequences: 62578
Number of extensions: 357209
Number of successful extensions: 849
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 842
Number of HSP's gapped (non-prelim): 6
length of query: 332
length of database: 14,973,337
effective HSP length: 99
effective length of query: 233
effective length of database: 8,778,115
effective search space: 2045300795
effective search space used: 2045300795
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)