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= 042474
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2HCZ|X Chain X, Crystal Structure Of Expb1 (Zea M 1), A Beta-Expansin And
Group-1 Pollen Allergen From Maize
Length = 245
Score = 100 bits (249), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 73/243 (30%), Positives = 113/243 (46%), Gaps = 32/243 (13%)
Query: 28 WMQAHATFYG---GSDASETMGGACGYGNLYTDGYGTKTAALSTVLFNNGKSCGGCYHIV 84
W+ A AT+YG G+ A + GGACG N+ Y TA + +F +GK CG CY +
Sbjct: 19 WLTARATWYGQPNGAGAPDN-GGACGIKNVNLPPYSGMTACGNVPIFKDGKGCGSCYEVR 77
Query: 85 CDGRKVPQWCRRGTSIIITATNFCPPNYDLPNDNGGWCNPPRAHFDMSQPAFESIA---- 140
C ++ P+ ++ IT N+ P HFD+S AF S+A
Sbjct: 78 C--KEKPECSGNPVTVYITDMNYEPIA--------------PYHFDLSGKAFGSLAKPGL 121
Query: 141 ---IYRAGIVPVLYRKVGCMRSGGLRFTINGRD----YFELVLVSNVGGAGEVSNVWIKG 193
I GI+ V +R+V C G + + + VLV V G++ + I+
Sbjct: 122 NDKIRHCGIMDVEFRRVRCKYPAGQKIVFHIEKGCNPNYLAVLVKYVADDGDIVLMEIQD 181
Query: 194 SKMSKWQVMSRNWGANWQSLTYLNAQ-SLSFRVQTSNGRTRTAYNVAPSNWRFGQSFKSN 252
++W+ M +WGA W+ T + S R+ + +G+ A +V P+NWR + SN
Sbjct: 182 KLSAEWKPMKLSWGAIWRMDTAKALKGPFSIRLTSESGKKVIAKDVIPANWRPDAVYTSN 241
Query: 253 VQF 255
VQF
Sbjct: 242 VQF 244
>pdb|1N10|A Chain A, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
Allergen
pdb|1N10|B Chain B, Crystal Structure Of Phl P 1, A Major Timothy Grass Pollen
Allergen
Length = 241
Score = 85.1 bits (209), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 68/240 (28%), Positives = 106/240 (44%), Gaps = 32/240 (13%)
Query: 28 WMQAHATFYGGSDAS--ETMGGACGYGNLYTDGYGTKTAALSTVLFNNGKSCGGCYHIVC 85
W+ A +T+YG + + GGACGY ++ + T +T +F +G+ CG C+ I C
Sbjct: 19 WLDAKSTWYGKPTGAGPKDNGGACGYKDVDKPPFSGMTGCGNTPIFKSGRGCGSCFEIKC 78
Query: 86 DGRKVPQWCRRGTSIIITATNFCPPNYDLPNDNGGWCNPPRAHFDMSQPAFESIA----- 140
P+ C G +++ T +DN P HFD+S AF ++A
Sbjct: 79 ---TKPEAC-SGEPVVVHIT----------DDNEEPIAP--YHFDLSGHAFGAMAKKGDE 122
Query: 141 --IYRAGIVPVLYRKVGCMRSGGLRFTIN-----GRDYFELVLVSNVGGAGEVSNVWIKG 193
+ AG + + +R+V C G + T + +Y L LV V G G+V V IK
Sbjct: 123 QKLRSAGELELQFRRVKCKYPEGTKVTFHVEKGSNPNYLAL-LVKYVNGDGDVVAVDIKE 181
Query: 194 SKMSKWQVMSRNWGANWQSLTYLNAQ-SLSFRVQTSNGRTRTAYNVAPSNWRFGQSFKSN 252
KW + +WGA W+ T + R T G A +V P W+ S++S
Sbjct: 182 KGKDKWIELKESWGAIWRIDTPDKLTGPFTVRYTTEGGTKTEAEDVIPEGWKADTSYESK 241
>pdb|3EU8|A Chain A, Crystal Structure Of Putative Glucoamylase (Yp_210071.1)
From Bacteroides Fragilis Nctc 9343 At 2.12 A Resolution
pdb|3EU8|B Chain B, Crystal Structure Of Putative Glucoamylase (Yp_210071.1)
From Bacteroides Fragilis Nctc 9343 At 2.12 A Resolution
pdb|3EU8|C Chain C, Crystal Structure Of Putative Glucoamylase (Yp_210071.1)
From Bacteroides Fragilis Nctc 9343 At 2.12 A Resolution
pdb|3EU8|D Chain D, Crystal Structure Of Putative Glucoamylase (Yp_210071.1)
From Bacteroides Fragilis Nctc 9343 At 2.12 A Resolution
Length = 430
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 2/55 (3%)
Query: 38 GSDASETMGGACGYGNLYTDGYG--TKTAALSTVLFNNGKSCGGCYHIVCDGRKV 90
G AS ++ G +G L D G + TAALS++++ +S +H+ G KV
Sbjct: 312 GLTASYSVDGYAAHGPLERDDRGVISPTAALSSIVYTPDQSLQVXHHLYEXGDKV 366
>pdb|1WPQ|A Chain A, Ternary Complex Of Glycerol 3-Phosphate Dehydrogenase 1
With Nad And Dihydroxyactone
pdb|1WPQ|B Chain B, Ternary Complex Of Glycerol 3-Phosphate Dehydrogenase 1
With Nad And Dihydroxyactone
Length = 349
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 35 FYGGSDASETMGGACGYGNLYTDGYGTKTAALSTVLFNNGKSCGGCYHIVCDGRKV--PQ 92
F G +S T +CG +L T YG + ++ GKS + +G+K+ P+
Sbjct: 242 FCSGPVSSATFLESCGVADLITTCYGGRNRKVAEAFARTGKSIEQLEKELLNGQKLQGPE 301
Query: 93 WCRRGTSII 101
R SI+
Sbjct: 302 TARELYSIL 310
>pdb|3GV2|A Chain A, X-Ray Structure Of Hexameric Hiv-1 Ca
pdb|3GV2|B Chain B, X-Ray Structure Of Hexameric Hiv-1 Ca
pdb|3GV2|C Chain C, X-Ray Structure Of Hexameric Hiv-1 Ca
pdb|3GV2|D Chain D, X-Ray Structure Of Hexameric Hiv-1 Ca
pdb|3GV2|E Chain E, X-Ray Structure Of Hexameric Hiv-1 Ca
pdb|3GV2|F Chain F, X-Ray Structure Of Hexameric Hiv-1 Ca
Length = 342
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 140 AIYRAGIVPVLYRKVGCMRSGGLRFTINGRDYFELVLVSNVGGAGEVSNVWIKGSKMSKW 199
A+ +AG + + VG +R+G RFT+N R + V + G ++ +G+ + W
Sbjct: 252 AMVKAGRITI----VGYIRAGSARFTLNIRGDVQEVKTAMAAGIDAINRT--EGADVKTW 305
Query: 200 QVMSR 204
++ R
Sbjct: 306 VIIPR 310
>pdb|1X0X|A Chain A, Co-Structure Of Homo Sapiens Glycerol-3-Phosphate
Dehydrogenase 1 Complex With Nad
Length = 354
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 35 FYGGSDASETMGGACGYGNLYTDGYGTKTAALSTVLFNNGKSCGGCYHIVCDGRKV--PQ 92
F G +S T +CG +L T YG + ++ GKS + +G+K+ P+
Sbjct: 247 FCSGPVSSATFLESCGVADLITTCYGGRNRKVAEAFARTGKSIEQLEKELLNGQKLQGPE 306
Query: 93 WCRRGTSII 101
R SI+
Sbjct: 307 TARELYSIL 315
>pdb|1X0V|A Chain A, Crystal Structure Of Homo Sapien Glycerol-3-Phosphate
Dehydrogenase 1
pdb|1X0V|B Chain B, Crystal Structure Of Homo Sapien Glycerol-3-Phosphate
Dehydrogenase 1
Length = 354
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 2/69 (2%)
Query: 35 FYGGSDASETMGGACGYGNLYTDGYGTKTAALSTVLFNNGKSCGGCYHIVCDGRKV--PQ 92
F G +S T +CG +L T YG + ++ GKS + +G+K+ P+
Sbjct: 247 FCSGPVSSATFLESCGVADLITTCYGGRNRKVAEAFARTGKSIEQLEKELLNGQKLQGPE 306
Query: 93 WCRRGTSII 101
R SI+
Sbjct: 307 TARELYSIL 315
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 0.135 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,378,987
Number of Sequences: 62578
Number of extensions: 359851
Number of successful extensions: 655
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 10
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
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: 50 (23.9 bits)