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= psy12875
(308 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1L9X|A Chain A, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|B Chain B, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|C Chain C, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|D Chain D, Structure Of Gamma-Glutamyl Hydrolase
Length = 315
Score = 111 bits (277), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 84/288 (29%), Positives = 128/288 (44%), Gaps = 68/288 (23%)
Query: 15 STDTPVIGILAQEYTHIPSYVKAYPNYTSYIAASYVKNIEAAGARVVPILIGQDREYYAE 74
+ P+IGIL Q+ + +K Y Y YIAASYVK +E+AGARVVP+ + + Y
Sbjct: 27 TAKKPIIGILMQKCRN--KVMKNYGRY--YIAASYVKYLESAGARVVPVRLDLTEKDYEI 82
Query: 75 ILTQINGVVIPGGGTGFDHPNGYADAGRQILHLVDKINEEGVTFPVLGVCLGFELILQVS 134
+ ING++ PGG
Sbjct: 83 LFKSINGILFPGG----------------------------------------------- 95
Query: 135 NNDTDFRKS--CKVQQVNLNLKFLPGAKRSSLFSQINEEGVTFPVLGVCLGFELILQVSN 192
D R+S KV ++ NL Q ++G FPV G CLGFE + + +
Sbjct: 96 --SVDLRRSDYAKVAKIFYNLSI-----------QSFDDGDYFPVWGTCLGFEELSLLIS 142
Query: 193 NDTDFRKSCKVQQVNLNLKFLPGAKRSSLFSQVPSKYIKKFYQKPLTHNNHIWCITRQDM 252
+ + V V + L F G S +F P++ + +PLT N H W ++ ++
Sbjct: 143 GECLLTATDTVD-VAMPLNFTGGQLHSRMFQNFPTELLLSLAVEPLTANFHKWSLSVKNF 201
Query: 253 -IKYGLTETWNILTLSKYKSWEFVSTVEHKEYPIVGIQFHPEKNAYEW 299
+ L + +N+LT + EF+ST+E +YP+ G+Q+HPEK YEW
Sbjct: 202 TMNEKLKKFFNVLTTNTDGKIEFISTMEGYKYPVYGVQWHPEKAPYEW 249
>pdb|1QDL|B Chain B, The Crystal Structure Of Anthranilate Synthase From
Sulfolobus Solfataricus
Length = 195
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 47/122 (38%), Gaps = 19/122 (15%)
Query: 172 GVTFPVLGVCLGFELILQVSNNDTDFRKSCKVQQVNLNLKFLPGAKRSSLFSQVPSKYIK 231
G P+LGVCLG + I R++ KV ++ L SL+ + ++
Sbjct: 75 GKRTPILGVCLGHQAIGYAFG--AKIRRARKVFHGKISNIILVNNSPLSLYYGIAKEFKA 132
Query: 232 KFYQKPLTHNNHIWCITRQDMIKYGLTETWNILTLSKYKSWEFVSTVEHKEYPIVGIQFH 291
Y + H I D I E + + H+EYPI G+QFH
Sbjct: 133 TRYHSLVVDEVHRPLIV--DAISAEDNE---------------IMAIHHEEYPIYGVQFH 175
Query: 292 PE 293
PE
Sbjct: 176 PE 177
>pdb|1WL8|A Chain A, Crystal Structure Of Ph1346 Protein From Pyrococcus
Horikoshii
Length = 189
Score = 34.3 bits (77), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 51/118 (43%), Gaps = 23/118 (19%)
Query: 176 PVLGVCLGFELILQVSNNDTDFRKSCKVQQVNLNLKFLPGAKRSSLFSQVPSKYIKKFYQ 235
P+LG+CLG +LI + K + ++ +L + +F +P +
Sbjct: 74 PILGICLGHQLIAKFFGG-----KVGRGEKAEYSLVEIEIIDEXEIFKGLPKRL------ 122
Query: 236 KPLTHNNHIWCITRQDMIKYGLTETWNILTLSKYKSWEFVSTVEHKEYPIVGIQFHPE 293
+W + D +K L + IL S+ + ++H+E PI G+QFHPE
Sbjct: 123 -------KVWE-SHMDEVKE-LPPKFKILARSETXP---IEAMKHEELPIYGVQFHPE 168
>pdb|2D7J|A Chain A, Crystal Structure Analysis Of Glutamine Amidotransferase
From Pyrococcus Horikoshii Ot3
Length = 209
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 51/118 (43%), Gaps = 23/118 (19%)
Query: 176 PVLGVCLGFELILQVSNNDTDFRKSCKVQQVNLNLKFLPGAKRSSLFSQVPSKYIKKFYQ 235
P+LG+CLG +LI + K + ++ +L + +F +P +
Sbjct: 94 PILGICLGHQLIAKFFGG-----KVGRGEKAEYSLVEIEIIDEDEIFKGLPKRL------ 142
Query: 236 KPLTHNNHIWCITRQDMIKYGLTETWNILTLSKYKSWEFVSTVEHKEYPIVGIQFHPE 293
+W + D +K L + IL S+ + ++H+E PI G+QFHPE
Sbjct: 143 -------KVW-ESHMDEVKE-LPPKFKILARSETCP---IEAMKHEELPIYGVQFHPE 188
>pdb|4DWR|B Chain B, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|A Chain A, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|C Chain C, Rna Ligase RtcbMN2+ COMPLEX
Length = 487
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 56/133 (42%), Gaps = 18/133 (13%)
Query: 105 LHLVDKINEEGVTFP----VLGVCLGFELILQVSNNDTDFRKSCKVQQVNLNLKFLPGAK 160
L +DKI E F V G E++L+ ND ++ N+ LPG
Sbjct: 5 LKRIDKIRWEIPKFDKRMRVPGRVYADEVLLEKMKNDRTLEQAT-------NVAMLPGIY 57
Query: 161 RSSLFSQINEEGVTFPVLGVCLGFELILQV-SNNDTDFRKSCKVQQVNLNL---KFLPGA 216
+ S+ +G FP+ GV F++ V S + +C V+ + NL + P
Sbjct: 58 KYSIVMPDGHQGYGFPIGGVA-AFDVKEGVISPGGIGYDINCGVRLIRTNLTEKEVRPRI 116
Query: 217 KR--SSLFSQVPS 227
K+ +LF VPS
Sbjct: 117 KQLVDTLFKNVPS 129
>pdb|1UC2|A Chain A, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|1UC2|B Chain B, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|4DWQ|A Chain A, Rtcb-GmpMN2+ COMPLEX
pdb|4DWQ|B Chain B, Rtcb-GmpMN2+ COMPLEX
Length = 481
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 56/133 (42%), Gaps = 18/133 (13%)
Query: 105 LHLVDKINEEGVTFP----VLGVCLGFELILQVSNNDTDFRKSCKVQQVNLNLKFLPGAK 160
L +DKI E F V G E++L+ ND ++ N+ LPG
Sbjct: 5 LKRIDKIRWEIPKFDKRMRVPGRVYADEVLLEKMKNDRTLEQAT-------NVAMLPGIY 57
Query: 161 RSSLFSQINEEGVTFPVLGVCLGFELILQV-SNNDTDFRKSCKVQQVNLNL---KFLPGA 216
+ S+ +G FP+ GV F++ V S + +C V+ + NL + P
Sbjct: 58 KYSIVMPDGHQGYGFPIGGVA-AFDVKEGVISPGGIGYDINCGVRLIRTNLTEKEVRPRI 116
Query: 217 KR--SSLFSQVPS 227
K+ +LF VPS
Sbjct: 117 KQLVDTLFKNVPS 129
>pdb|1S1M|A Chain A, Crystal Structure Of E. Coli Ctp Synthetase
pdb|1S1M|B Chain B, Crystal Structure Of E. Coli Ctp Synthetase
pdb|2AD5|A Chain A, Mechanisms Of Feedback Regulation And Drug Resistance Of
Ctp Synthetases: Structure Of The E. Coli Ctps/ctp
Complex At 2.8- Angstrom Resolution.
pdb|2AD5|B Chain B, Mechanisms Of Feedback Regulation And Drug Resistance Of
Ctp Synthetases: Structure Of The E. Coli Ctps/ctp
Complex At 2.8- Angstrom Resolution
Length = 545
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 49/265 (18%), Positives = 98/265 (36%), Gaps = 44/265 (16%)
Query: 31 IPSYVKAYPNYTSYIAASYVKNIEAAGARVVPILIGQDREYYA-EILTQINGVVIPGGGT 89
+ Y++ Y S I A ++ + + ++ QD E EIL ++ +++PGG
Sbjct: 295 VGKYIELPDAYKSVIEALKHGGLKNRVSVNIKLIDSQDVETRGVEILKGLDAILVPGG-- 352
Query: 90 GFDHPNGYADAGRQILHLVDKINEEGVTFPVLGVCLGFELILQVSNNDTDFRKSCKVQQV 149
+ G + + + E P LG+CLG ++ L D+ + +
Sbjct: 353 -------FGYRGVEGMITTARFAREN-NIPYLGICLGMQVAL------IDYARHVANMEN 398
Query: 150 NLNLKFLPGAKRSSLFSQINEEGVTFPVLGVCLGFELILQVSNNDTDFRKSCKVQQVNLN 209
+ +F+P K +PV+ + + D + + ++ +L
Sbjct: 399 ANSTEFVPDCK--------------YPVVALITEW--------RDENGNVEVRSEKSDLG 436
Query: 210 LKFLPGAKRSSLFSQVPSKYIKKFYQKPLTHNNHIWCITRQDMIKYGLTETWNILTLSKY 269
GA++ L V +++ Y P H +M+ + E + +
Sbjct: 437 GTMRLGAQQCQL---VDDSLVRQLYNAPTIVERHRHRYEVNNMLLKQI-EDAGLRVAGRS 492
Query: 270 KSWEFVSTVEHKEYP-IVGIQFHPE 293
+ V +E +P V QFHPE
Sbjct: 493 GDDQLVEIIEVPNHPWFVACQFHPE 517
>pdb|3VM5|A Chain A, Recombinant Medaka Fish Alpha-Amylase Expressed In Yeast
Pichia Pastoris
Length = 505
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 11/71 (15%)
Query: 207 NLNLKFLPGAKRSSLFSQVPSKYIKKFYQKPLTHNNHIWCITRQDMIKYG-----LTETW 261
NLN K+ PG R +F +V +P+T ++ + R KYG L W
Sbjct: 216 NLNTKWFPGGSRPFIFQEV-----IDLGGEPITTGEYV-GLGRVTEFKYGARLGELFRKW 269
Query: 262 NILTLSKYKSW 272
N LS K+W
Sbjct: 270 NGQKLSYTKNW 280
>pdb|2AT2|A Chain A, Molecular Structure Of Bacillus Subtilis Aspartate
Transcarbamoylase At 3.0 Angstroms Resolution
pdb|2AT2|B Chain B, Molecular Structure Of Bacillus Subtilis Aspartate
Transcarbamoylase At 3.0 Angstroms Resolution
pdb|2AT2|C Chain C, Molecular Structure Of Bacillus Subtilis Aspartate
Transcarbamoylase At 3.0 Angstroms Resolution
Length = 300
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 8/76 (10%)
Query: 50 VKNIEAAGARVVPILIGQDREYYAEILTQINGVVIPGGGTGFDHPNGYADAGRQILHLVD 109
++ +E+ G V I +D EYY E+++Q+N ++ G HP + +L L+
Sbjct: 85 IRTLESIGVDVCVIRHSED-EYYEELVSQVNIPILNAGDGCGQHPT------QSLLDLM- 136
Query: 110 KINEEGVTFPVLGVCL 125
I EE TF L V +
Sbjct: 137 TIYEEFNTFKGLTVSI 152
>pdb|2ZY2|A Chain A, Dodecameric L-Aspartate Beta-Decarboxylase
Length = 544
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 11/44 (25%)
Query: 82 VVIPGGGTGFDHPNG-----------YADAGRQILHLVDKINEE 114
V++PG G G D P+G YA GR + L D++ E+
Sbjct: 481 VLLPGRGFGSDRPSGRASLANLNEYEYAAIGRALRRLADELYEQ 524
>pdb|3R7D|A Chain A, Crystal Structure Of Unliganded Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7D|B Chain B, Crystal Structure Of Unliganded Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7D|C Chain C, Crystal Structure Of Unliganded Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7F|A Chain A, Crystal Structure Of Cp-Bound Aspartate Transcarbamoylase
From Bacillus Subtilis
pdb|3R7F|B Chain B, Crystal Structure Of Cp-Bound Aspartate Transcarbamoylase
From Bacillus Subtilis
pdb|3R7F|C Chain C, Crystal Structure Of Cp-Bound Aspartate Transcarbamoylase
From Bacillus Subtilis
pdb|3R7L|A Chain A, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|B Chain B, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|C Chain C, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|D Chain D, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|E Chain E, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
pdb|3R7L|F Chain F, Crystal Structure Of Pala-Bound Aspartate
Transcarbamoylase From Bacillus Subtilis
Length = 304
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 38/76 (50%), Gaps = 8/76 (10%)
Query: 50 VKNIEAAGARVVPILIGQDREYYAEILTQINGVVIPGGGTGFDHPNGYADAGRQILHLVD 109
++ +E+ G V I +D EYY E+++Q+N ++ G HP + +L L+
Sbjct: 85 IRTLESIGVDVCVIRHSED-EYYEELVSQVNIPILNAGDGCGQHPT------QSLLDLM- 136
Query: 110 KINEEGVTFPVLGVCL 125
I EE TF L V +
Sbjct: 137 TIYEEFNTFKGLTVSI 152
>pdb|4GUD|A Chain A, Crystal Structure Of Amidotransferase Hish From Vibrio
Cholerae
pdb|4GUD|B Chain B, Crystal Structure Of Amidotransferase Hish From Vibrio
Cholerae
Length = 211
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 34/61 (55%), Gaps = 7/61 (11%)
Query: 74 EILTQINGVVIPGGGTGFDHPNGYADAGRQILHLVDKINEEGVTFPVLGVCLGFELILQV 133
+++ + + +PG GT + + R ++ LV ++ + P+LG+CLG +L+ ++
Sbjct: 36 QVVLAADKLFLPGVGTASEAXKNLTE--RDLIELVKRVEK-----PLLGICLGXQLLGKL 88
Query: 134 S 134
S
Sbjct: 89 S 89
>pdb|2WAF|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain R6)
Length = 682
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 10 ISTVTSTDTP--VIGILAQEYT---HIPSYVKAYPNYTSYIAASYVKNIEAAGARVVPIL 64
+ T T D P G + +EY+ +I + + NYT A YV I G RV P +
Sbjct: 487 LGTATGIDLPDESTGFVPKEYSFANYITNAFGQFDNYTPMQLAQYVATIANNGVRVAPRI 546
Query: 65 I 65
+
Sbjct: 547 V 547
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 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,751,245
Number of Sequences: 62578
Number of extensions: 423045
Number of successful extensions: 1031
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1012
Number of HSP's gapped (non-prelim): 27
length of query: 308
length of database: 14,973,337
effective HSP length: 99
effective length of query: 209
effective length of database: 8,778,115
effective search space: 1834626035
effective search space used: 1834626035
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: 51 (24.3 bits)