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= 042952
(349 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RQH|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Pyruvic Acid
Length = 472
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 71/156 (45%), Gaps = 9/156 (5%)
Query: 31 RMEWFQKKLPDLEV---FQSTNL--SRAFHDRVLKFSTNQCAIQFFMVWLSPARIFRPRD 85
R+ F+K +P+ + + NL R ++D V+ ++ A V+ + PR+
Sbjct: 72 RLRTFRKLMPNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRN 131
Query: 86 FL-AVETLMKANPHS--CLVLISRSLDTRRGY-KILKPLLDLGFKILAVTPDLASLVKDT 141
A+ + KA H+ + + T GY K+ LLD+G +A+ D+A+L+K
Sbjct: 132 MAHAMAAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDMGADSIALXKDMAALLKPQ 191
Query: 142 PAETWLKQIKDGERDPGKISLSVQLSNLIRLAVLYK 177
PA +K IKD +I+L + + L K
Sbjct: 192 PAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMK 227
>pdb|1RR2|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To 2- Ketobutyric Acid
Length = 473
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 71/156 (45%), Gaps = 9/156 (5%)
Query: 31 RMEWFQKKLPDLEV---FQSTNL--SRAFHDRVLKFSTNQCAIQFFMVWLSPARIFRPRD 85
R+ F+K +P+ + + NL R ++D V+ ++ A V+ + PR+
Sbjct: 73 RLRTFRKLMPNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRN 132
Query: 86 FL-AVETLMKANPHS--CLVLISRSLDTRRGY-KILKPLLDLGFKILAVTPDLASLVKDT 141
A+ + KA H+ + + T GY K+ LLD+G +A+ D+A+L+K
Sbjct: 133 MAHAMAAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDMGADSIALXKDMAALLKPQ 192
Query: 142 PAETWLKQIKDGERDPGKISLSVQLSNLIRLAVLYK 177
PA +K IKD +I+L + + L K
Sbjct: 193 PAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMK 228
>pdb|1S3H|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
A59t
Length = 539
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 71/156 (45%), Gaps = 10/156 (6%)
Query: 31 RMEWFQKKLPDLEV---FQSTNL--SRAFHDRVLKFSTNQCAIQFFMVWLSPARIFRPRD 85
R+ F+K +P+ + + NL R ++D V+ ++ A V+ + PR+
Sbjct: 86 RLRTFRKLMPNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRN 145
Query: 86 FL-AVETLMKANPHS--CLVLISRSLDTRRGY-KILKPLLDLGFKILAVTPDLASLVKDT 141
A+ + KA H+ + + T GY K+ LLD+G +A+ D+A+L+K
Sbjct: 146 MAHAMAAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDMGADSIALX-DMAALLKPQ 204
Query: 142 PAETWLKQIKDGERDPGKISLSVQLSNLIRLAVLYK 177
PA +K IKD +I+L + + L K
Sbjct: 205 PAYDIIKAIKDTYGQKTQINLHCHSTTGVTEVSLMK 240
>pdb|1U5J|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit,
Met186ile
Length = 539
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 63/131 (48%), Gaps = 10/131 (7%)
Query: 31 RMEWFQKKLPDLEV---FQSTNL--SRAFHDRVLKFSTNQCAIQFFMVWLSPARIFRPRD 85
R+ F+K +P+ + + NL R ++D V+ ++ A V+ + PR+
Sbjct: 86 RLRTFRKLMPNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRN 145
Query: 86 FL-AVETLMKANPHS--CLVLISRSLDTRRGY-KILKPLLDLGFKILAVTPDLASLVKDT 141
A+ + KA H+ + + T GY K+ LLD+G +A+ D+A+L+K
Sbjct: 146 MAHAMAAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDMGADSIALX-DIAALLKPQ 204
Query: 142 PAETWLKQIKD 152
PA +K IKD
Sbjct: 205 PAYDIIKAIKD 215
>pdb|1RQE|A Chain A, Propionibacterium Shermanii Transcarboxylase 5s Subunit
Bound To Oxaloacetate
Length = 539
Score = 34.7 bits (78), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 63/131 (48%), Gaps = 10/131 (7%)
Query: 31 RMEWFQKKLPDLEV---FQSTNL--SRAFHDRVLKFSTNQCAIQFFMVWLSPARIFRPRD 85
R+ F+K +P+ + + NL R ++D V+ ++ A V+ + PR+
Sbjct: 86 RLRTFRKLMPNSRLQMLLRGQNLLGYRHYNDEVVDRFVDKSAENGMDVFRVFDAMNDPRN 145
Query: 86 FL-AVETLMKANPHS--CLVLISRSLDTRRGY-KILKPLLDLGFKILAVTPDLASLVKDT 141
A+ + KA H+ + + T GY K+ LLD+G +A+ D+A+L+K
Sbjct: 146 MAHAMAAVKKAGKHAQGTICYTISPVHTVEGYVKLAGQLLDMGADSIALK-DMAALLKPQ 204
Query: 142 PAETWLKQIKD 152
PA +K IKD
Sbjct: 205 PAYDIIKAIKD 215
>pdb|2VK9|A Chain A, Crystal Structure Of The Catalytic Domain Of Alpha-Toxin
From Clostridium Novyi
Length = 551
Score = 34.3 bits (77), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 19/22 (86%)
Query: 167 SNLIRLAVLYKYGGVYLDTDFI 188
S+++R+A+L KYGGVY D DF+
Sbjct: 267 SDILRIAILKKYGGVYCDLDFL 288
>pdb|1UF2|K Chain K, The Atomic Structure Of Rice Dwarf Virus (Rdv)
Length = 506
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 51/113 (45%), Gaps = 14/113 (12%)
Query: 143 AETWLKQIKDGERDPGKISLSVQLSNLIRLAVLYKYGGVYLDTDFIVLKDFKGLRNAIGP 202
+ET K + DG ++ +S ++S L V K G + +DF +K K L + G
Sbjct: 316 SETISKHVSDGSYG-NRVIISHKMSRLSNGGV--KIIGRFKISDFNTVK--KNLSSRSG- 369
Query: 203 QEVDQATRKWKTLNNAALVFDKGHPILFDFLQEFATTF-------DGNTWGHN 248
E+D A +W+ L+ LV D +L D + + T+ DGN N
Sbjct: 370 -EIDSAKEQWEALSGNGLVTDSNISMLHDKILDTITSNKPGVVLRDGNKKSEN 421
>pdb|1TJY|A Chain A, Crystal Structure Of Salmonella Typhimurium Ai-2 Receptor
Lsrb In Complex With R-Thmf
pdb|1TM2|A Chain A, Crystal Structure Of The Apo Form Of The Salmonella
Typhimurium Ai-2 Receptor Lsrb
Length = 316
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/49 (24%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 282 VQIKRFFKKPATEEESKWVDETVLRLSEESYGLHLWNKITRKFVINEGS 330
++ F+ P ++++WV E ++S+E G W +T +F N+ +
Sbjct: 129 AKVAFFYSSPTVTDQNQWVKEAKAKISQEHPG---WEIVTTQFGYNDAT 174
>pdb|4DMV|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
Difficile Toxin A
pdb|4DMW|A Chain A, Crystal Structure Of The Gt Domain Of Clostridium
Difficile Toxin A (Tcda) In Complex With Udp And
Manganese
Length = 556
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 167 SNLIRLAVLYKYGGVYLDTDFI 188
S+++RL L +GGVYLD D +
Sbjct: 283 SDIVRLLALKNFGGVYLDVDML 304
>pdb|3SRZ|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
Domain Bound To Udp-Glucose
pdb|3SS1|A Chain A, Clostridium Difficile Toxin A (Tcda) Glucolsyltransferase
Domain
Length = 555
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 167 SNLIRLAVLYKYGGVYLDTDFI 188
S+++RL L +GGVYLD D +
Sbjct: 268 SDIVRLLALKNFGGVYLDVDML 289
>pdb|3N9X|A Chain A, Crystal Structure Of Map Kinase From Plasmodium Berghei,
Pb000659.00.0
pdb|3N9X|B Chain B, Crystal Structure Of Map Kinase From Plasmodium Berghei,
Pb000659.00.0
Length = 432
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 302 ETVLRLSEESYGLHLWNKITRKFVINEGSVIHRLIK-SHCILCQD 345
+T + L+EE L+N + + I+E +IHR +K ++C+L QD
Sbjct: 121 KTPIFLTEEHIKTILYNLLLGENFIHESGIIHRDLKPANCLLNQD 165
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 0.140 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,843,325
Number of Sequences: 62578
Number of extensions: 449749
Number of successful extensions: 1017
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1011
Number of HSP's gapped (non-prelim): 13
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)