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= 041048
(335 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4I1K|A Chain A, Crystal Structure Of Vrn1 (residues 208-341)
pdb|4I1K|B Chain B, Crystal Structure Of Vrn1 (residues 208-341)
Length = 146
Score = 150 bits (380), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 68/128 (53%), Positives = 94/128 (73%), Gaps = 1/128 (0%)
Query: 202 DEVGLRWRAVTTEEKKRTVHAAEMYKSSNPLFRVILRPSYVYRTLLLHVPTSFARKYLNG 261
+ R R VT EE++R ++AA+ ++ +NP FRV+LRPSY+YR ++++P+ FA KYL+G
Sbjct: 18 ESASARKRTVTAEERERAINAAKTFEPTNPFFRVVLRPSYLYRGCIMYLPSGFAEKYLSG 77
Query: 262 IKGYITIIDSNGKQWPVRCIFKNGGAKFSKGWPEFVWENNLDESDVCVFELIKSNDVTLK 321
I G+I + + KQWPVRC++K G AKFS+GW EF ENNL E DVCVFEL+++ D LK
Sbjct: 78 ISGFIKVQLAE-KQWPVRCLYKAGRAKFSQGWYEFTLENNLGEGDVCVFELLRTRDFVLK 136
Query: 322 ATIFRVLE 329
T FRV E
Sbjct: 137 VTAFRVNE 144
>pdb|1YEL|A Chain A, Structure Of The Hypothetical Arabidopsis Thaliana
Protein At1g16640.1
Length = 104
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 37/78 (47%)
Query: 20 KKLRIPDKFVQKFGDELSSIAKFTIPSGRMWFVELKKCNKQLWFDIGWHEFIEHCSIHSG 79
K L IP F + F SGR W V +KK ++++ +GW F++ ++ G
Sbjct: 22 KSLEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDG 81
Query: 80 YFLIFKYQGNSNFNVYIF 97
+L F Y + F V I+
Sbjct: 82 KYLQFIYDRDRTFYVIIY 99
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 33/78 (42%), Gaps = 2/78 (2%)
Query: 248 LHVPTSFARKYLNGIKGYITIIDSNGKQWPVRCIFKNGGAKFSKGWPEFVWENNLDESDV 307
L +P F + + ++D +G+ W VR + + GW FV +NNL++
Sbjct: 24 LEIPLGFNEYFPAPFPITVDLLDYSGRSWTVRMKKRGEKVFLTVGWENFVKDNNLEDGKY 83
Query: 308 CVFELIKSNDVTLKATIF 325
F I D T I+
Sbjct: 84 LQF--IYDRDRTFYVIIY 99
>pdb|1WID|A Chain A, Solution Structure Of The B3 Dna-Binding Domain Of Rav1
Length = 130
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 40/98 (40%), Gaps = 9/98 (9%)
Query: 232 LFRVILRPSYVYRTLLLHVPTSFARKYLN------GIKG-YITIIDSNGKQWPVRCIFKN 284
LF + PS V + L +P A K+ +KG + D NGK W R + N
Sbjct: 13 LFEKAVTPSDVGKLNRLVIPKHHAEKHFPLPSSNVSVKGVLLNFEDVNGKVWRFRYSYWN 72
Query: 285 GGAKF--SKGWPEFVWENNLDESDVCVFELIKSNDVTL 320
+ +KGW FV E NL DV F D L
Sbjct: 73 SSQSYVLTKGWSRFVKEKNLRAGDVVSFSRSNGQDQQL 110
>pdb|3EW1|A Chain A, Crystal Structure Of Rhizavidin
pdb|3EW1|B Chain B, Crystal Structure Of Rhizavidin
pdb|3EW1|C Chain C, Crystal Structure Of Rhizavidin
pdb|3EW1|D Chain D, Crystal Structure Of Rhizavidin
pdb|3EW1|E Chain E, Crystal Structure Of Rhizavidin
pdb|3EW1|F Chain F, Crystal Structure Of Rhizavidin
pdb|3EW2|A Chain A, Crystal Structure Of Rhizavidin-Biotin Complex
pdb|3EW2|B Chain B, Crystal Structure Of Rhizavidin-Biotin Complex
pdb|3EW2|C Chain C, Crystal Structure Of Rhizavidin-Biotin Complex
pdb|3EW2|D Chain D, Crystal Structure Of Rhizavidin-Biotin Complex
pdb|3EW2|E Chain E, Crystal Structure Of Rhizavidin-Biotin Complex
pdb|3EW2|F Chain F, Crystal Structure Of Rhizavidin-Biotin Complex
pdb|3EW2|G Chain G, Crystal Structure Of Rhizavidin-Biotin Complex
Length = 135
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 63 FDIGWHEFIEHCSIHSGYFLIFKYQGNSNFNVYIFDLAISEIEYPSLEEPSDSKQCHVPI 122
F +GW+ E+C+ +G+ + GN+ V ++LA P++E+ D+ Q +VP
Sbjct: 68 FSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQ-YVPT 126
Query: 123 EKDK 126
++K
Sbjct: 127 TENK 130
>pdb|3UPT|A Chain A, Crystal Structure Of A Transketolase From Burkholderia
Pseudomallei Bound To Tpp, Calcium And
Ribose-5-Phosphate
pdb|3UPT|B Chain B, Crystal Structure Of A Transketolase From Burkholderia
Pseudomallei Bound To Tpp, Calcium And
Ribose-5-Phosphate
Length = 711
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 46/93 (49%), Gaps = 7/93 (7%)
Query: 200 TSDEVGLRWRAVTTEEKKR------TVHAAEMYKSSNPLFRVILRPSYVYRTLLLHVPTS 253
T EV L +AV ++ ++ +++++ + +R + P V R + T
Sbjct: 605 TGSEVELAMKAVEPLAQQGIAARVVSMPSSDVFDRQDAEYRERVLPHGVRRVAIEAGVTD 664
Query: 254 FARKYLNGIKGYITIIDSNGKQWPVRCIFKNGG 286
F RKY+ G++G + ID+ G+ P +FK+ G
Sbjct: 665 FWRKYV-GLEGGVVGIDTFGESAPAGVLFKHFG 696
>pdb|3BTA|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype A
pdb|2NYY|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Cr1
pdb|2NZ9|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
pdb|2NZ9|B Chain B, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
Length = 1295
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 235 VILRPSYVYRTLLLHVPTSFARKYLNGIKGYITIIDSNGKQWPVRCIFKNGGAKFSKGWP 294
VIL+ + VY ++ + TSF + I Y I N + + C+ N G K S +
Sbjct: 925 VILKNAIVYNSMYENFSTSFWIR----IPKYFNSISLNNEYTIINCMENNSGWKVSLNYG 980
Query: 295 EFVW 298
E +W
Sbjct: 981 EIIW 984
>pdb|3V0A|A Chain A, 2.7 Angstrom Crystal Structure Of BontAI IN COMPLEX WITH
NTNHA
pdb|3V0B|A Chain A, 3.9 Angstrom Crystal Structure Of BontAI IN COMPLEX WITH
NTNHA
Length = 1296
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 235 VILRPSYVYRTLLLHVPTSFARKYLNGIKGYITIIDSNGKQWPVRCIFKNGGAKFSKGWP 294
VIL+ + VY ++ + TSF + I Y I N + + C+ N G K S +
Sbjct: 926 VILKNAIVYNSMYENFSTSFWIR----IPKYFNSISLNNEYTIINCMENNSGWKVSLNYG 981
Query: 295 EFVW 298
E +W
Sbjct: 982 EIIW 985
>pdb|3UK1|A Chain A, Crystal Structure Of A Transketolase From Burkholderia
Thailandensis With An Oxidized Cysteinesulfonic Acid In
The Active Site
pdb|3UK1|B Chain B, Crystal Structure Of A Transketolase From Burkholderia
Thailandensis With An Oxidized Cysteinesulfonic Acid In
The Active Site
Length = 711
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 46/93 (49%), Gaps = 7/93 (7%)
Query: 200 TSDEVGLRWRAVTTEEKKR------TVHAAEMYKSSNPLFRVILRPSYVYRTLLLHVPTS 253
T EV L +AV ++ ++ +++++ + +R + P V R + T
Sbjct: 605 TGSEVELAMKAVEPLAQQGIAARVVSMPSSDVFDRQDAEYRERVLPHGVRRVAIEAGVTD 664
Query: 254 FARKYLNGIKGYITIIDSNGKQWPVRCIFKNGG 286
F RKY+ G++G + ID+ G+ P +FK+ G
Sbjct: 665 FWRKYV-GLEGGVVGIDTFGESAPAGVLFKHFG 696
>pdb|3V0C|A Chain A, 4.3 Angstrom Crystal Structure Of An Inactive BontA
(E224qR363AY366F)
Length = 1312
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 235 VILRPSYVYRTLLLHVPTSFARKYLNGIKGYITIIDSNGKQWPVRCIFKNGGAKFSKGWP 294
VIL+ + VY ++ + TSF + I Y I N + + C+ N G K S +
Sbjct: 926 VILKNAIVYNSMYENFSTSFWIR----IPKYFNSISLNNEYTIINCMENNSGWKVSLNYG 981
Query: 295 EFVW 298
E +W
Sbjct: 982 EIIW 985
>pdb|3FUO|A Chain A, The Crystal Structure Of Receptor Binding Domain Of
Botulinum Neurotoxin Serotype A
Length = 426
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 35/78 (44%), Gaps = 4/78 (5%)
Query: 221 HAAEMYKSSNPLFRVILRPSYVYRTLLLHVPTSFARKYLNGIKGYITIIDSNGKQWPVRC 280
+ +++ + VIL+ + VY ++ + TSF + I Y I N + + C
Sbjct: 42 NQIQLFNLESSKIEVILKNAIVYNSMYENFSTSFWIR----IPKYFNSISLNNEYTIINC 97
Query: 281 IFKNGGAKFSKGWPEFVW 298
+ N G K S + E +W
Sbjct: 98 MENNSGWKVSLNYGEIIW 115
>pdb|2VU9|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype A
Binding Domain In Complex With Gt1b
pdb|2VUA|A Chain A, Crystal Structure Of The Botulinum Neurotoxin Serotype A
Binding Domain
Length = 444
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 30/64 (46%), Gaps = 4/64 (6%)
Query: 235 VILRPSYVYRTLLLHVPTSFARKYLNGIKGYITIIDSNGKQWPVRCIFKNGGAKFSKGWP 294
VIL+ + VY ++ + TSF + I Y I N + + C+ N G K S +
Sbjct: 73 VILKNAIVYNSMYENFSTSFWIR----IPKYFNSISLNNEYTIINCMENNSGWKVSLNYG 128
Query: 295 EFVW 298
E +W
Sbjct: 129 EIIW 132
>pdb|1EU8|A Chain A, Structure Of Trehalose Maltose Binding Protein From
Thermococcus Litoralis
Length = 409
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 277 PVRCIFKNGGAKFSKGWPEFVWE-NNLDESDV 307
PVR +F+ G A F + WP + W +N D+S V
Sbjct: 240 PVRLMFQQGNAAFERNWP-YAWGLHNADDSPV 270
>pdb|2A8B|A Chain A, Crystal Structure Of The Catalytic Domain Of Human
Tyrosine Phosphatase Receptor, Type R
Length = 283
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 230 NPLFRVILRPSYVYRTLLLHVPTSFARKYLNGIKGYIT 267
NPL RV LRP V +L ++ ++ R Y K +I
Sbjct: 55 NPLSRVCLRPKNVTDSLSTYINANYIRGYSGKEKAFIA 92
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
0.321 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,703,835
Number of Sequences: 62578
Number of extensions: 490197
Number of successful extensions: 1082
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1070
Number of HSP's gapped (non-prelim): 23
length of query: 335
length of database: 14,973,337
effective HSP length: 99
effective length of query: 236
effective length of database: 8,778,115
effective search space: 2071635140
effective search space used: 2071635140
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)