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= 008022
(581 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 37.0 bits (84), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 29/132 (21%), Positives = 53/132 (40%), Gaps = 10/132 (7%)
Query: 414 NELLDGLLRVNRVKEAFELVTEIEKCGIQLNIVTYNTILHGVCRAGMVVEA--------- 464
+ LD + V EA L E + G+QL+ YN +L+ A E+
Sbjct: 30 KQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRG 89
Query: 465 FQLLGKMLIEGTKLDAITFNIIIYAYCKQGKVNNAIQLLDRIRGGGEWNPDIISYTSLLW 524
F + +M+++ + TF + A ++ +++ G P + SY L+
Sbjct: 90 FDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFG-IQPRLRSYGPALF 148
Query: 525 GICNSGGMQEAF 536
G C G +A+
Sbjct: 149 GFCRKGDADKAY 160
Score = 36.6 bits (83), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 31/77 (40%)
Query: 220 LGILGQMFVRGCNPNIHSFTSLLKGYLLGGRTHEASDLWNRMIREGFLPNVVAYSTLIHG 279
I QM V PN +FT+ + + A D+ +M G P + +Y + G
Sbjct: 90 FDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFG 149
Query: 280 LCSNGSMDEAVSVSYQM 296
C G D+A V M
Sbjct: 150 FCRKGDADKAYEVDAHM 166
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 28/130 (21%), Positives = 53/130 (40%), Gaps = 9/130 (6%)
Query: 312 IDGFAKAGNLLGASQIWNRMISNGCS-----PNVVAYTCMVKVLC----QNNMFHQAHSL 362
+D +K G++L A ++++ NG NV+ Y C + N + +
Sbjct: 33 LDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDI 92
Query: 363 IEKMAFENCPPNTVTFNTFIKGLCGCGRVDWAMKLLDQMKQYECLPNITTYNELLDGLLR 422
++M + PN TF + + A ++ QMK + P + +Y L G R
Sbjct: 93 FKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCR 152
Query: 423 VNRVKEAFEL 432
+A+E+
Sbjct: 153 KGDADKAYEV 162
Score = 36.2 bits (82), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 22/111 (19%), Positives = 47/111 (42%)
Query: 397 LLDQMKQYECLPNITTYNELLDGLLRVNRVKEAFELVTEIEKCGIQLNIVTYNTILHGVC 456
+ QM + +PN T+ + + + AF++V +++ GIQ + +Y L G C
Sbjct: 92 IFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFC 151
Query: 457 RAGMVVEAFQLLGKMLIEGTKLDAITFNIIIYAYCKQGKVNNAIQLLDRIR 507
R G +A+++ M+ + ++ + + L R+R
Sbjct: 152 RKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLR 202
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 28/131 (21%), Positives = 50/131 (38%), Gaps = 10/131 (7%)
Query: 415 ELLDGLLRVNRVKEAFELVTEIEKCGIQLNIVTYNTILHGVCRAGMVVEA---------F 465
+ LD + V EA L E + G+QL+ YN +L+ A E+ F
Sbjct: 31 QKLDXCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGF 90
Query: 466 QLLGKMLIEGTKLDAITFNIIIYAYCKQGKVNNAIQLLDRIRGGGEWNPDIISYTSLLWG 525
+ + +++ + TF + A + + + G P + SY L+G
Sbjct: 91 DIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFG-IQPRLRSYGPALFG 149
Query: 526 ICNSGGMQEAF 536
C G +A+
Sbjct: 150 FCRKGDADKAY 160
Score = 32.7 bits (73), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 30/61 (49%)
Query: 407 LPNITTYNELLDGLLRVNRVKEAFELVTEIEKCGIQLNIVTYNTILHGVCRAGMVVEAFQ 466
+PN T+ + + + AF+ V + + GIQ + +Y L G CR G +A++
Sbjct: 102 VPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYE 161
Query: 467 L 467
+
Sbjct: 162 V 162
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 27/74 (36%)
Query: 220 LGILGQMFVRGCNPNIHSFTSLLKGYLLGGRTHEASDLWNRMIREGFLPNVVAYSTLIHG 279
I Q V PN +FT+ + + A D + G P + +Y + G
Sbjct: 90 FDIFKQXIVDKVVPNEATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFG 149
Query: 280 LCSNGSMDEAVSVS 293
C G D+A V
Sbjct: 150 FCRKGDADKAYEVD 163
>pdb|1B35|B Chain B, Cricket Paralysis Virus (Crpv)
Length = 255
Score = 33.5 bits (75), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 344 TCMVKVLCQNNMFHQAHSLIEKMAFENCPPNTVTF-NTFIKGLCGCGRVDWAMKL 397
T +VKV + F Q +++ + + PN VT N ++G GC R D + +
Sbjct: 110 TLVVKVQVNSQPFQQGRLMLQYIPYAQYMPNRVTLINETLQGRSGCPRTDLELSV 164
>pdb|1SZU|A Chain A, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
pdb|1SZU|B Chain B, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
pdb|1SZU|C Chain C, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
pdb|1SZU|D Chain D, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
Length = 426
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 27/119 (22%), Positives = 51/119 (42%), Gaps = 17/119 (14%)
Query: 265 GFLPNVVAYSTLIHGLCSNGSM----DEAVSVS------YQMEENSCPPNVTTYSALIDG 314
GF + A+ + LC + DEA S + + ME+ P++TT++ I G
Sbjct: 213 GFYASSPAFMQRLRALCDEHGIMLIADEAQSGAGRTGTLFAMEQMGVAPDLTTFAKSIAG 272
Query: 315 FAKAGNLLGASQIWNRMISNGCSPNV-------VAYTCMVKVLCQNNMFHQAHSLIEKM 366
+ G +++ + + G VA ++KV Q N+ +A+ L +K+
Sbjct: 273 GFPLAGVTGRAEVMDAVAPGGLGGTYAGNPIACVAALEVLKVFEQENLLQKANDLGQKL 331
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 35/65 (53%), Gaps = 4/65 (6%)
Query: 165 VSVYNALINGLCKEHKIEEAFWLLCEMVDRGIDPNVITYSTIISSL----CDVGNVETSL 220
+ +YNA++ G ++ +E ++L + D G+ P++++Y+ + + D G +E L
Sbjct: 165 LDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCL 224
Query: 221 GILGQ 225
+ Q
Sbjct: 225 EQMSQ 229
>pdb|3RR1|A Chain A, Crystal Structure Of Enolase Prk14017 (Target Efi-500653)
From Ralstonia Pickettii 12j
pdb|3RR1|B Chain B, Crystal Structure Of Enolase Prk14017 (Target Efi-500653)
From Ralstonia Pickettii 12j
pdb|3RRA|A Chain A, Crystal Structure Of Enolase Prk14017 (Target Efi-500653)
From Ralstonia Pickettii 12j With Magnesium Bound
pdb|3RRA|B Chain B, Crystal Structure Of Enolase Prk14017 (Target Efi-500653)
From Ralstonia Pickettii 12j With Magnesium Bound
Length = 405
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 215 NVETSLGI--LGQMFVRGCNPNIHSFTSLLKGYLLGGRTHEASDLWNRMIREGF 266
VET G+ G+ + G + + L YL+G +DLW M R GF
Sbjct: 20 KVETDEGVTGWGEPVIEGRARTVEAAVHELSDYLIGQDPSRINDLWQTMYRAGF 73
>pdb|1SF2|A Chain A, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SF2|B Chain B, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SF2|C Chain C, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SF2|D Chain D, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SFF|A Chain A, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
pdb|1SFF|B Chain B, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
pdb|1SFF|C Chain C, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
pdb|1SFF|D Chain D, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
Length = 426
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 26/119 (21%), Positives = 50/119 (42%), Gaps = 17/119 (14%)
Query: 265 GFLPNVVAYSTLIHGLCSNGSM----DEAVSVS------YQMEENSCPPNVTTYSALIDG 314
GF + A+ + LC + DE S + + ME+ P++TT++ I G
Sbjct: 213 GFYASSPAFMQRLRALCDEHGIMLIADEVQSGAGRTGTLFAMEQMGVAPDLTTFAKSIAG 272
Query: 315 FAKAGNLLGASQIWNRMISNGCSPNV-------VAYTCMVKVLCQNNMFHQAHSLIEKM 366
+ G +++ + + G VA ++KV Q N+ +A+ L +K+
Sbjct: 273 GFPLAGVTGRAEVMDAVAPGGLGGTYAGNPIACVAALEVLKVFEQENLLQKANDLGQKL 331
>pdb|1SZK|A Chain A, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
pdb|1SZK|B Chain B, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
pdb|1SZK|C Chain C, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
pdb|1SZK|D Chain D, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
Length = 426
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/119 (21%), Positives = 50/119 (42%), Gaps = 17/119 (14%)
Query: 265 GFLPNVVAYSTLIHGLCSNGSM----DEAVSVS------YQMEENSCPPNVTTYSALIDG 314
GF + A+ + LC + DE S + + ME+ P++TT++ I G
Sbjct: 213 GFYASSPAFMQRLRALCDEHGIMLIADEVQSGAGRTGTLFAMEQMGVAPDLTTFAKSIAG 272
Query: 315 FAKAGNLLGASQIWNRMISNGCSPNV-------VAYTCMVKVLCQNNMFHQAHSLIEKM 366
+ G +++ + + G VA ++KV Q N+ +A+ L +K+
Sbjct: 273 GFPLAGVTGRAEVMDAVAPGGLGGTYAGNPIACVAALEVLKVFEQENLLQKANDLGQKL 331
>pdb|1SZS|A Chain A, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
pdb|1SZS|B Chain B, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
pdb|1SZS|C Chain C, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
pdb|1SZS|D Chain D, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
Length = 426
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 26/119 (21%), Positives = 50/119 (42%), Gaps = 17/119 (14%)
Query: 265 GFLPNVVAYSTLIHGLCSNGSM----DEAVSVS------YQMEENSCPPNVTTYSALIDG 314
GF + A+ + LC + DE S + + ME+ P++TT++ I G
Sbjct: 213 GFYASSPAFMQRLRALCDEHGIMLIADEVQSGAGRTGTLFAMEQMGVAPDLTTFAKSIAG 272
Query: 315 FAKAGNLLGASQIWNRMISNGCSPNV-------VAYTCMVKVLCQNNMFHQAHSLIEKM 366
+ G +++ + + G VA ++KV Q N+ +A+ L +K+
Sbjct: 273 GFPLAGVTGRAEVMDAVAPGGLGGTYAGNPIACVAALEVLKVFEQENLLQKANDLGQKL 331
>pdb|1NC5|A Chain A, Structure Of Protein Of Unknown Function Of Yter From
Bacillus Subtilis
pdb|2D8L|A Chain A, Crystal Structure Of Unsaturated Rhamnogalacturonyl
Hydrolase In Complex With Dglca-Galnac
Length = 373
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 18/97 (18%)
Query: 469 GKMLIEGTKLDAITFNIIIYAYCKQGKVNNAIQLLDRIRG----------GGEWNPDIIS 518
G +L +LDAI +I++ +Q K ++ R+R GG W+ D
Sbjct: 78 GNLLFRRDELDAIQAGLILFPLYEQTKDERYVKAAKRLRSLYGTLNRTSEGGFWHKDGYP 137
Query: 519 YTSLLWGICNSGGM--------QEAFIYLQKMLNEGI 547
Y L G+ G QE ++ Q +L E +
Sbjct: 138 YQMWLDGLYMGGPFALKYANLKQETELFDQVVLQESL 174
>pdb|2GH4|A Chain A, YterD143NDGALA-Rha
Length = 363
Score = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 18/97 (18%)
Query: 469 GKMLIEGTKLDAITFNIIIYAYCKQGKVNNAIQLLDRIRG----------GGEWNPDIIS 518
G +L +LDAI +I++ +Q K ++ R+R GG W+ D
Sbjct: 68 GNLLFRRDELDAIQAGLILFPLYEQTKDERYVKAAKRLRSLYGTLNRTSEGGFWHKDGYP 127
Query: 519 YTSLLWGICNSGGM--------QEAFIYLQKMLNEGI 547
Y L G+ G QE ++ Q +L E +
Sbjct: 128 YQMWLNGLYMGGPFALKYANLKQETELFDQVVLQESL 164
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
0.323 0.138 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,224,636
Number of Sequences: 62578
Number of extensions: 707070
Number of successful extensions: 1329
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: 1313
Number of HSP's gapped (non-prelim): 23
length of query: 581
length of database: 14,973,337
effective HSP length: 104
effective length of query: 477
effective length of database: 8,465,225
effective search space: 4037912325
effective search space used: 4037912325
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: 54 (25.4 bits)