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= 005035
(717 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SS9|A Chain A, Crystal Structural Analysis Of Active Site Mutant Q189e Of
Lgtc
Length = 311
Score = 42.7 bits (99), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 79/191 (41%), Gaps = 30/191 (15%)
Query: 514 NPKYLSILNHLRFYLPEVFPRLNKVLFLDDDVVVQKDLSGLWSIDLKGKVNGAVETCGET 573
N +++SI + R L E +KVL+LD DV+V+ L+ LW DL GA C +
Sbjct: 75 NIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGA---CIDL 131
Query: 574 FHRFDRYLNFSNPLISKNFDPRACGWAY---GMNIFDLDEWRRQNITDVYHTWQKMNHDR 630
F +R + + A G Y G+ + +L +WRR +I + W + D
Sbjct: 132 F--VERQEGYKQKI------GMADGEYYFNAGVLLINLKKWRRHDIFKMSCEWVEQYKDV 183
Query: 631 QLWKLGTLPPGLITFWKRTYPLDRFWHVLGLGYNPSVNQ----------RD----IERAA 676
++ + GL Y RF + + Y N+ RD + A
Sbjct: 184 MQYQDEDILNGLFKG-GVCYANSRF-NFMPTNYAFMANRFASRHTDPLYRDRTNTVMPVA 241
Query: 677 VIHYNGNMKPW 687
V HY G KPW
Sbjct: 242 VSHYCGPAKPW 252
>pdb|1G9R|A Chain A, Crystal Structure Of Galactosyltransferase Lgtc In Complex
With Mn And Udp-2f-Galactose
pdb|1GA8|A Chain A, Crystal Structure Of Galacosyltransferase Lgtc In Complex
With Donor And Acceptor Sugar Analogs
Length = 311
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 73/188 (38%), Gaps = 24/188 (12%)
Query: 514 NPKYLSILNHLRFYLPEVFPRLNKVLFLDDDVVVQKDLSGLWSIDLKGKVNGA-VETCGE 572
N +++SI + R L E +KVL+LD DV+V+ L+ LW DL GA ++ E
Sbjct: 75 NIRHISITTYARLKLGEYIADCDKVLYLDIDVLVRDSLTPLWDTDLGDNWLGASIDLFVE 134
Query: 573 TFHRFDRYLNFSNPLISKNFDPRACGWAYGMNIFDLDEWRRQNITDVYHTWQKMNHDRQL 632
+ + + ++ N G+ + +L +WRR +I W + D
Sbjct: 135 RQEGYKQKIGXADGEYYFN---------AGVLLINLKKWRRHDIFKXSSEWVEQYKDVXQ 185
Query: 633 WKLGTLPPGL-----------ITFWKRTYPLDRFWHVLGLGYNPSVNQR--DIERAAVIH 679
++ + GL F Y W +P R + AV H
Sbjct: 186 YQDQDILNGLFKGGVCYANSRFNFXPTNYAFXANWFA-SRHTDPLYRDRTNTVXPVAVSH 244
Query: 680 YNGNMKPW 687
Y G KPW
Sbjct: 245 YCGPAKPW 252
>pdb|3JWA|A Chain A, Crystal Structure Of L-Methionine Gamma-Lyase From
Citrobacter Freundii With Methionine Phosphinate
pdb|3JWB|A Chain A, Crystal Structure Of L-Methionine Gamma-Lyase From
Citrobacter Freundii With Norleucine
Length = 398
Score = 32.3 bits (72), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 56/114 (49%), Gaps = 12/114 (10%)
Query: 345 SDNVLAAAVVVNSTVTHAKVIYSSLKYALILPLVAKKIGENIRKLAISFLYSFVFLERWF 404
D++++A+ + THA + +S K+ + + V E IR A+ V++E
Sbjct: 103 GDHIVSASAIYG--CTHAFLSHSMPKFGINVSFVDAAKPEEIRA-AMRPETKVVYIETPA 159
Query: 405 RASINL--------LSFQRRPLLSVDMS-NSPCCIEPLQHPSNHVFHIVTDRLN 449
+++L ++ Q+ LL VD + SP C +PLQ ++ V H VT +N
Sbjct: 160 NPTLSLVDIETVAGIAHQQGALLVVDNTFMSPYCQQPLQLGADIVVHSVTXYIN 213
>pdb|3JW9|A Chain A, Crystal Structure Of L-Methionine Gamma-Lyase From
Citrobacter Freundii With S-Ethyl-Cysteine
Length = 398
Score = 32.3 bits (72), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 56/114 (49%), Gaps = 12/114 (10%)
Query: 345 SDNVLAAAVVVNSTVTHAKVIYSSLKYALILPLVAKKIGENIRKLAISFLYSFVFLERWF 404
D++++A+ + THA + +S K+ + + V E IR A+ V++E
Sbjct: 103 GDHIVSASAIYG--CTHAFLSHSMPKFGINVSFVDAAKPEEIRA-AMRPETKVVYIETPA 159
Query: 405 RASINL--------LSFQRRPLLSVDMS-NSPCCIEPLQHPSNHVFHIVTDRLN 449
+++L ++ Q+ LL VD + SP C +PLQ ++ V H VT +N
Sbjct: 160 NPTLSLVDIETVAGIAHQQGALLVVDNTFMSPYCQQPLQLGADIVVHSVTXYIN 213
>pdb|1Y4I|A Chain A, Crystal Structure Of Citrobacter Freundii
L-Methionine-Lyase
Length = 398
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 56/114 (49%), Gaps = 12/114 (10%)
Query: 345 SDNVLAAAVVVNSTVTHAKVIYSSLKYALILPLVAKKIGENIRKLAISFLYSFVFLERWF 404
D++++A+ + THA + +S K+ + + V E IR A+ V++E
Sbjct: 103 GDHIVSASAIYG--CTHAFLSHSMPKFGINVRFVDAGKPEEIRA-AMRPETKVVYIETPA 159
Query: 405 RASINL--------LSFQRRPLLSVDMS-NSPCCIEPLQHPSNHVFHIVTDRLN 449
+++L ++ Q+ LL VD + SP C +PLQ ++ V H VT +N
Sbjct: 160 NPTLSLVDIETVAGIAHQQGALLVVDNTFMSPYCQQPLQLGADIVVHSVTXYIN 213
>pdb|2RFV|A Chain A, High Resolution Structure Of L-Methionine Gamma-Lyase From
Citrobacter Freundii
Length = 398
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 56/114 (49%), Gaps = 12/114 (10%)
Query: 345 SDNVLAAAVVVNSTVTHAKVIYSSLKYALILPLVAKKIGENIRKLAISFLYSFVFLERWF 404
D++++A+ + THA + +S K+ + + V E IR A+ V++E
Sbjct: 103 GDHIVSASAIYG--CTHAFLSHSMPKFGINVRFVDAAKPEEIRA-AMRPETKVVYIETPA 159
Query: 405 RASINL--------LSFQRRPLLSVDMS-NSPCCIEPLQHPSNHVFHIVTDRLN 449
+++L ++ Q+ LL VD + SP C +PLQ ++ V H VT +N
Sbjct: 160 NPTLSLVDIETVAGIAHQQGALLVVDNTFMSPYCQQPLQLGADIVVHSVTXYIN 213
>pdb|1P99|A Chain A, 1.7a Crystal Structure Of Protein Pg110 From
Staphylococcus Aureus
Length = 295
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 23/34 (67%), Gaps = 1/34 (2%)
Query: 226 KEVQRALGDATKDSDLP-RIANDRLKAMEQSLAK 258
KE Q+AL + KD + P ++ D +KA+E SLAK
Sbjct: 262 KEAQKALQEDVKDGEKPVNLSKDEIKAIETSLAK 295
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
0.320 0.134 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,820,325
Number of Sequences: 62578
Number of extensions: 852478
Number of successful extensions: 2373
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 2367
Number of HSP's gapped (non-prelim): 10
length of query: 717
length of database: 14,973,337
effective HSP length: 106
effective length of query: 611
effective length of database: 8,340,069
effective search space: 5095782159
effective search space used: 5095782159
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: 55 (25.8 bits)