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= 016356
(391 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1O5Z|A Chain A, Crystal Structure Of Folylpolyglutamate Synthase (Tm0166)
From Thermotoga Maritima At 2.10 A Resolution
Length = 442
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 54/139 (38%), Gaps = 12/139 (8%)
Query: 68 YFKRPAGRASDGRLIVDFLAQALGLPFLSPYLQSIGSDYRHGANYATLASTVLLPN---- 123
Y KRP G+ G + L LG P L IG G+ A + S +L+
Sbjct: 23 YHKRPMGKVKPGLERISMLLSKLGNPHLEYKTIHIGGTNGKGS-VANMVSNILVSQGYRV 81
Query: 124 TSLFVTGISPFSLAIQLNQMKEFKARVDEFHSSCTSGSTKLPSPDIFGKSLYT------- 176
S + +S F I+LN+ + V + + + +L +IF S +
Sbjct: 82 GSYYSPHLSTFRERIRLNEEYISEEDVVKIYETMEPILNELDKEEIFSPSFFEVVTAMAF 141
Query: 177 FYIGQNDFTSNLAAIGIGG 195
Y + + + +G+GG
Sbjct: 142 LYFAEKNVDIAVLEVGLGG 160
>pdb|3I5T|A Chain A, Crystal Structure Of Aminotransferase Prk07036 From
Rhodobacter Sphaeroides Kd131
pdb|3I5T|B Chain B, Crystal Structure Of Aminotransferase Prk07036 From
Rhodobacter Sphaeroides Kd131
Length = 476
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 38/126 (30%), Positives = 50/126 (39%), Gaps = 24/126 (19%)
Query: 62 GPFGMTYFKRPAGRASDGRLIVDFLA-QALGLPFLSPYLQSIGSDYRHGANYATLASTVL 120
GP GM + GR R IVD +A QA+ LP+ SP+ + R ATL L
Sbjct: 59 GPAGMWCAQVGYGR----REIVDAMAHQAMVLPYASPWYMATSPAARLAEKIATLTPGDL 114
Query: 121 LPNTSLFVTGISP-----------FSLAIQLNQMKEFKARVDEFHSS------CTSGSTK 163
N F TG S ++ + Q K R D +H S CT +
Sbjct: 115 --NRIFFTTGGSTAVDSALRFSEFYNNVLGRPQKKRIIVRYDGYHGSTALTAACTGRTGN 172
Query: 164 LPSPDI 169
P+ DI
Sbjct: 173 WPNFDI 178
>pdb|4F4F|A Chain A, X-Ray Crystal Structure Of Plp Bound Threonine Synthase
From Brucella Melitensis
pdb|4F4F|B Chain B, X-Ray Crystal Structure Of Plp Bound Threonine Synthase
From Brucella Melitensis
Length = 468
Score = 32.3 bits (72), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 46/102 (45%), Gaps = 23/102 (22%)
Query: 199 FLPQVVSQIAGTVEELYALGGRTFLVLNLAPIGCYPAFLVQLPHSSSDLDAYGCMISYNN 258
+LPQ Q T E++ AL G++++ + LA V P + ++ A
Sbjct: 35 YLPQEYPQF--TAEQIRALRGKSYVEVALA---------VLTPFTGGEIPA--------- 74
Query: 259 AVLDYNNMLKEALAQTRRNLPNASLICVDTHSVLLELFQNPT 300
D+ M++EA T R+ L+ D + +LELF PT
Sbjct: 75 --ADFERMVREAYG-TFRHDAVCPLVQTDANEFVLELFHGPT 113
>pdb|3SL2|A Chain A, Atp Forms A Stable Complex With The Essential Histidine
Kinase Walk (yycg) Domain
Length = 177
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 2/62 (3%)
Query: 253 MISYNNAVLDYNNMLKEALAQTRRNLPNASLICVDTHSVLLELFQNPTSHGLKYGTQACC 312
++ + + ++D M KE + RNLP+ L + ++ N S+ LKY +
Sbjct: 5 IVRFMSLIIDRFEMTKEQHVEFIRNLPDRDLYVEIDQDKITQVLDNIISNALKYSPEG-- 62
Query: 313 GH 314
GH
Sbjct: 63 GH 64
>pdb|3H53|A Chain A, Crystal Structure Of Human Alpha-N-Acetylgalactosaminidase
pdb|3H53|B Chain B, Crystal Structure Of Human Alpha-N-Acetylgalactosaminidase
pdb|3H54|A Chain A, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase,Complex With Galnac
pdb|3H54|B Chain B, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase,Complex With Galnac
pdb|3H55|A Chain A, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase, Complex With Galactose
pdb|3H55|B Chain B, Crystal Structure Of Human
Alpha-N-Acetylgalactosaminidase, Complex With Galactose
pdb|3IGU|A Chain A, Crystal Structure Of Human
Alpha-n-acetylgalactosaminidase, Covalent Intermediate
pdb|3IGU|B Chain B, Crystal Structure Of Human
Alpha-n-acetylgalactosaminidase, Covalent Intermediate
pdb|4DO4|A Chain A, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO4|B Chain B, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO5|A Chain A, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO5|B Chain B, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO6|A Chain A, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
pdb|4DO6|B Chain B, Pharmacological Chaperones For Human
Alpha-N-Acetylgalactosaminidase
Length = 400
Score = 28.1 bits (61), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 74 GRASDGRLIVDFLAQALGLPFLSPYLQSIG 103
GR + GRL+ D G+PFL+ Y+ S+G
Sbjct: 67 GRDASGRLMPDPKRFPHGIPFLADYVHSLG 96
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
0.322 0.137 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,108,785
Number of Sequences: 62578
Number of extensions: 504844
Number of successful extensions: 1055
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1051
Number of HSP's gapped (non-prelim): 13
length of query: 391
length of database: 14,973,337
effective HSP length: 101
effective length of query: 290
effective length of database: 8,652,959
effective search space: 2509358110
effective search space used: 2509358110
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: 52 (24.6 bits)