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= 012575
(460 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1U0K|A Chain A, The Structure Of A Predicted Epimerase Pa4716 From
Pseudomonas Aeruginosa
pdb|1U0K|B Chain B, The Structure Of A Predicted Epimerase Pa4716 From
Pseudomonas Aeruginosa
Length = 288
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 12/89 (13%)
Query: 244 PPDIVAVRVPLLHLS--------NFQINDWPELPAKSYAVMVLMLPTDG--GRKWRDHEL 293
PP +V+ +P L L Q+ND E K A V +L DG GR W + L
Sbjct: 156 PPRVVSTGLPYLLLPVTAEALGRARQVNDLQEALDKLGAAFVYLLDVDGREGRTWDN--L 213
Query: 294 ELIDVVADQVAVALSHAAILEDSMRARNQ 322
L++ VA A A ++E + AR +
Sbjct: 214 GLVEDVATGSAAGPVAAYLVEYGLAARGE 242
>pdb|3W2Z|A Chain A, Crystal Structure Of The Cyanobacterial Protein
Length = 198
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 31/71 (43%), Gaps = 3/71 (4%)
Query: 257 LSNFQINDW---PELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAIL 313
L F+I + P A+ ++ G R+W + E + V Q +A+SHA L
Sbjct: 127 LEQFEIKAYIIVPVFAAEKLWGLLAAYQNSGTREWVEWESSFLTQVGLQFGIAISHAEYL 186
Query: 314 EDSMRARNQLM 324
E + Q++
Sbjct: 187 EQTRLQSEQMI 197
>pdb|2H5X|A Chain A, Ruva From Mycobacterium Tuberculosis
pdb|2H5X|B Chain B, Ruva From Mycobacterium Tuberculosis
pdb|2H5X|C Chain C, Ruva From Mycobacterium Tuberculosis
pdb|2H5X|D Chain D, Ruva From Mycobacterium Tuberculosis
Length = 196
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 253 PLLHLSNFQINDWPELP---AKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSH 309
P L ++ ++D P L A + +P G R LEL D+V VA +
Sbjct: 82 PRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMVLEL----RDKVGVAATG 137
Query: 310 AAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRT 357
A+ + R+ ++E V L A ++AE+A D NH+ T
Sbjct: 138 GALSTNGHAVRSPVVEALVGLGFAAKQAEEA----TDTVLAANHDATT 181
>pdb|2ZTC|A Chain A, Mtruva Form Ii
pdb|2ZTC|B Chain B, Mtruva Form Ii
pdb|2ZTC|C Chain C, Mtruva Form Ii
pdb|2ZTC|D Chain D, Mtruva Form Ii
pdb|2ZTD|A Chain A, Mtruva Form Iii
pdb|2ZTD|B Chain B, Mtruva Form Iii
pdb|2ZTE|A Chain A, Mtruva Form Iv
Length = 212
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 46/108 (42%), Gaps = 11/108 (10%)
Query: 253 PLLHLSNFQINDWPELP---AKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSH 309
P L ++ ++D P L A + +P G R LEL D+V VA +
Sbjct: 98 PRLAMAALAVHDAPALRQVLADGNVAALTRVPGIGKRGAERMVLEL----RDKVGVAATG 153
Query: 310 AAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRT 357
A+ + R+ ++E V L A ++AE+A D NH+ T
Sbjct: 154 GALSTNGHAVRSPVVEALVGLGFAAKQAEEA----TDTVLAANHDATT 197
>pdb|3OC2|A Chain A, Crystal Structure Of Penicillin-Binding Protein 3 From
Pseudomonas Aeruginosa
pdb|3OCL|A Chain A, Crystal Structure Of Penicillin-Binding Protein 3 From
Pseudomonas Aeruginosa In Complex With Carbenicillin
pdb|3OCN|A Chain A, Crystal Structure Of Penicillin-Binding Protein 3 From
Pseudomonas Aeruginosa In Complex With Ceftazidime
Length = 564
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 69/157 (43%), Gaps = 14/157 (8%)
Query: 112 LLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELG 171
L V + LK+R + +++ + + G+ + L+ ++R H L+ L+E G
Sbjct: 171 LAGVPGKRQVLKDRRGRVIKDV-QVTKNAKPGKTL-ALSIDLRLQYLAHRELRNALLENG 228
Query: 172 RTLGLEECALWMPSRTG----LNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLP 227
G + M +TG + + +Y NN+ + + N ++ DVF ++ P
Sbjct: 229 AKAG---SLVIMDVKTGEILAMTNQPTYNPNNRRNLQPAAMRNRAMI-DVFEPGSTVK-P 283
Query: 228 YNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQIND 264
++ A L GR+ P DIV V L + + I D
Sbjct: 284 FSMSAA---LASGRWKPSDIVDVYPGTLQIGRYTIRD 317
>pdb|3PBN|A Chain A, Crystal Structure Of Apo Pbp3 From Pseudomonas Aeruginosa
pdb|3PBO|A Chain A, Crystal Structure Of Pbp3 Complexed With Ceftazidime
pdb|3PBQ|A Chain A, Crystal Structure Of Pbp3 Complexed With Imipenem
pdb|3PBR|A Chain A, Crystal Structure Of Pbp3 Complexed With Meropenem
pdb|3PBS|A Chain A, Crystal Structure Of Pbp3 Complexed With Aztreonam
pdb|3PBT|A Chain A, Crystal Structure Of Pbp3 Complexed With Mc-1
Length = 538
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 69/157 (43%), Gaps = 14/157 (8%)
Query: 112 LLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELG 171
L V + LK+R + +++ + + G+ + L+ ++R H L+ L+E G
Sbjct: 145 LAGVPGKRQVLKDRRGRVIKDV-QVTKNAKPGKTL-ALSIDLRLQYLAHRELRNALLENG 202
Query: 172 RTLGLEECALWMPSRTG----LNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLP 227
G + M +TG + + +Y NN+ + + N ++ DVF ++ P
Sbjct: 203 AKAG---SLVIMDVKTGEILAMTNQPTYNPNNRRNLQPAAMRNRAMI-DVFEPGSTVK-P 257
Query: 228 YNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQIND 264
++ A L GR+ P DIV V L + + I D
Sbjct: 258 FSMSAA---LASGRWKPSDIVDVYPGTLQIGRYTIRD 291
>pdb|4FSF|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa Pbp3 Complexed
With Compound 14
Length = 536
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 69/157 (43%), Gaps = 14/157 (8%)
Query: 112 LLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELG 171
L V + LK+R + +++ + + G+ + L+ ++R H L+ L+E G
Sbjct: 143 LAGVPGKRQVLKDRRGRVIKDV-QVTKNAKPGKTL-ALSIDLRLQYLAHRELRNALLENG 200
Query: 172 RTLGLEECALWMPSRTG----LNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLP 227
G + M +TG + + +Y NN+ + + N ++ DVF ++ P
Sbjct: 201 AKAG---SLVIMDVKTGEILAMTNQPTYNPNNRRNLQPAAMRNRAMI-DVFEPGSTVK-P 255
Query: 228 YNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQIND 264
++ A L GR+ P DIV V L + + I D
Sbjct: 256 FSMSAA---LASGRWKPSDIVDVYPGTLQIGRYTIRD 289
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
0.325 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,657,991
Number of Sequences: 62578
Number of extensions: 422295
Number of successful extensions: 1144
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1144
Number of HSP's gapped (non-prelim): 11
length of query: 460
length of database: 14,973,337
effective HSP length: 102
effective length of query: 358
effective length of database: 8,590,381
effective search space: 3075356398
effective search space used: 3075356398
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)