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= psy10777
(246 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZXC|A Chain A, Seramidase Complexed With C2
pdb|2ZXC|B Chain B, Seramidase Complexed With C2
pdb|2ZWS|A Chain A, Crystal Structure Analysis Of Neutral Ceramidase From
Pseudomonas Aeruginosa
Length = 646
Score = 107 bits (266), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 87/271 (32%), Positives = 123/271 (45%), Gaps = 36/271 (13%)
Query: 1 MGYSFAAGTT-DGPGAFTFKQGTTNPDNPLWNVVTNIL-ATPTSDLIACQKPKPILLATG 58
+G S AAG+T DGPG ++G +NP + + +L P +L+ CQ K IL TG
Sbjct: 326 IGTSLAAGSTEDGPGPLGLEEG----NNPFLSALGGLLTGVPPQELVQCQAEKTILADTG 381
Query: 59 LMNVPHQWQPNTVSTQLVRIGHLVLVGVPGELTTMAGRRLRRALQDELGLLMESDVIIAG 118
P+ W P + Q+ RIG L L+G P E T MAG R+RRA+Q V+ G
Sbjct: 382 -NKKPYPWTPTVLPIQMFRIGQLELLGAPAEFTVMAGVRIRRAVQAASEAAGIRHVVFNG 440
Query: 119 LANTYADYVTTPEEYQIRR-----CLYHLRTSYPYH---------------LHQSVAHPF 158
AN YA YVTT EEY + LY T Y + S P
Sbjct: 441 YANAYASYVTTREEYAAQEYEGGSTLYGPWTQAAYQQLFVDMAVALRERLPVETSAIAPD 500
Query: 159 LAYWSNYINSFGFQIQRYEGASTIYGPHTLTIYISQYLKMAQHLAIA---GHPRNNLFHE 215
L+ + Y G S +G + + ++ + +A GHP+N+L E
Sbjct: 501 LSCCQMNFQTGVVADDPYIGKS--FG--DVLQQPRESYRIGDKVTVAFVTGHPKNDLRTE 556
Query: 216 KSYLTVERLTPSESGNSTWKIVATDANWDTK 246
K++L V + + G T VATD +WDT+
Sbjct: 557 KTFLEVVNI--GKDGKQTPVTVATDNDWDTQ 585
>pdb|1L4U|A Chain A, Crystal Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis In Complex With Mgadp And Pt(Ii) At 1.8
Angstrom Resolution
pdb|1L4Y|A Chain A, Crystal Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis In Complex With Mgadp At 2.0 Angstrom
Resolution
pdb|1U8A|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Shikimate
Kinase In Complex With Shikimate And Adp At 2.15
Angstrom Resolution
pdb|1WE2|A Chain A, Crystal Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis In Complex With Mgadp And Shikimic Acid
pdb|1ZYU|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Shikimate
Kinase In Complex With Shikimate And Amppcp At 2.85
Angstrom Resolution
pdb|2G1J|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Shikimate
Kinase At 2.0 Angstrom Resolution
pdb|2G1J|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Shikimate
Kinase At 2.0 Angstrom Resolution
pdb|2G1K|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Shikimate
Kinase In Complex With Shikimate At 1.75 Angstrom
Resolution
pdb|2DFN|A Chain A, Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis Complexed With Adp And Shikimate At 1.9
Angstrons Of Resolution
pdb|2DFT|A Chain A, Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis Complexed With Adp And Mg At 2.8 Angstrons
Of Resolution
pdb|2DFT|B Chain B, Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis Complexed With Adp And Mg At 2.8 Angstrons
Of Resolution
pdb|2DFT|C Chain C, Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis Complexed With Adp And Mg At 2.8 Angstrons
Of Resolution
pdb|2DFT|D Chain D, Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis Complexed With Adp And Mg At 2.8 Angstrons
Of Resolution
pdb|3BAF|A Chain A, Crystal Structure Of Shikimate Kinase From Mycobacterium
Tuberculosis In Complex With Amp-Pnp
Length = 176
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 32/58 (55%), Gaps = 4/58 (6%)
Query: 82 VLVGVPGELTTMAGRRLRRALQDELGLLMESDVIIA-GLANTYADYVTTPEEYQIRRC 138
VLVG+PG + GRRL +AL +GLL ++DV I + AD T E + RR
Sbjct: 6 VLVGLPGSGKSTIGRRLAKALG--VGLL-DTDVAIEQRTGRSIADIFATDGEQEFRRI 60
>pdb|2IYQ|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate And Adp
pdb|2IYR|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate
pdb|2IYR|B Chain B, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate
pdb|2IYS|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate, Open Lid (Conf. A)
pdb|2IYT|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Unliganded State, Open Lid (conf. A)
pdb|2IYU|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Adp, Open Lid (Conf. A)
pdb|2IYV|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Adp, Open Lid (Conf. B)
pdb|2IYW|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Mgatp, Open Lid (Conf. B)
pdb|2IYX|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate And So4
pdb|2IYY|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate-3-Phosphate And So4
pdb|2IYZ|A Chain A, Shikimate Kinase From Mycobacterium Tuberculosis In
Complex With Shikimate-3-Phosphate And Adp
Length = 184
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 32/58 (55%), Gaps = 4/58 (6%)
Query: 82 VLVGVPGELTTMAGRRLRRALQDELGLLMESDVIIA-GLANTYADYVTTPEEYQIRRC 138
VLVG+PG + GRRL +AL +GLL ++DV I + AD T E + RR
Sbjct: 6 VLVGLPGSGKSTIGRRLAKALG--VGLL-DTDVAIEQRTGRSIADIFATDGEQEFRRI 60
>pdb|1Q6U|A Chain A, Crystal Structure Of Fkpa From Escherichia Coli
Length = 245
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 23/33 (69%), Gaps = 2/33 (6%)
Query: 95 GRRLRRAL--QDELGLLMESDVIIAGLANTYAD 125
GR + +L Q++LG+ ++ D +IAG+ + +AD
Sbjct: 32 GRYMENSLKEQEKLGIKLDKDQLIAGVQDAFAD 64
>pdb|3E0U|A Chain A, Crystal Structure Of T. Cruzi Gpx1
Length = 166
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 147 PYHLHQSVAHPFLAYWSNYINSFGFQIQRYEGASTIY 183
PY L Q HP L Y N + G+ YE A+T+Y
Sbjct: 17 PYDLSQHKGHPLLIY--NVASRCGYTKGGYETATTLY 51
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 0.134 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,132,184
Number of Sequences: 62578
Number of extensions: 330156
Number of successful extensions: 655
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 649
Number of HSP's gapped (non-prelim): 8
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
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: 50 (23.9 bits)