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= 028196
(212 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OPG|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 298
Score = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 55/107 (51%), Gaps = 9/107 (8%)
Query: 96 EDKILGKAFGHIHSAYWSEERKRETPELETVSEILGYLRNLSLSDDDIRKLLKKFPEVLG 155
ED LG AF + A +SE+ LE + + YL + + S D+ ++++K P +L
Sbjct: 82 EDNQLG-AFLTKNHAIFSED-------LENLKTRVAYLHSKNFSKADVAQMVRKAPFLLN 133
Query: 156 CDIEHELRNNVQILGKDWGIEGKYLRNLLLRNPKVLGYNVDCKGDCM 202
+E L N + K+ + K R+L++R P++L +++ + M
Sbjct: 134 FSVE-RLDNRLGFFQKELELSVKKTRDLVVRLPRLLTGSLEPVKENM 179
>pdb|3M66|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Termination Factor 3
Length = 270
Score = 35.0 bits (79), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 50/96 (52%), Gaps = 9/96 (9%)
Query: 96 EDKILGKAFGHIHSAYWSEERKRETPELETVSEILGYLRNLSLSDDDIRKLLKKFPEVLG 155
ED LG AF + A +SE+ LE + + YL + + S D+ ++++K P +L
Sbjct: 54 EDNQLG-AFLTKNHAIFSED-------LENLKTRVAYLHSKNFSKADVAQMVRKAPFLLN 105
Query: 156 CDIEHELRNNVQILGKDWGIEGKYLRNLLLRNPKVL 191
+E L N + K+ + K R+L++R P++L
Sbjct: 106 FSVE-RLDNRLGFFQKELELSVKKTRDLVVRLPRLL 140
>pdb|3OOS|A Chain A, The Structure Of An AlphaBETA FOLD FAMILY HYDROLASE FROM
BACILLUS Anthracis Str. Sterne
Length = 278
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 8/71 (11%)
Query: 92 STEEEDKILGKAFGHIHSAYWSEERKRETPEL----ETVSEILGYLRNLSLSDDDIRKLL 147
+ +EE K L + + +++SEE+ E +L +TV L Y R + D D+R+ L
Sbjct: 160 TVQEERKALSREWAL--XSFYSEEKLEEALKLPNSGKTVGNRLNYFRQVEYKDYDVRQKL 217
Query: 148 K--KFPEVLGC 156
K K P + C
Sbjct: 218 KFVKIPSFIYC 228
>pdb|1YJ7|A Chain A, Crystal Structure Of Enteropathogenic E.Coli (Epec) Type
Iii Secretion System Protein Escj
pdb|1YJ7|B Chain B, Crystal Structure Of Enteropathogenic E.Coli (Epec) Type
Iii Secretion System Protein Escj
pdb|1YJ7|C Chain C, Crystal Structure Of Enteropathogenic E.Coli (Epec) Type
Iii Secretion System Protein Escj
pdb|1YJ7|D Chain D, Crystal Structure Of Enteropathogenic E.Coli (Epec) Type
Iii Secretion System Protein Escj
Length = 171
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 138 LSDDDIRKLLKKFPEVLGCDIEHELRNN 165
L + DI +LL K P V+ C + + NN
Sbjct: 90 LKEQDIERLLSKIPGVIDCSVSLNVNNN 117
>pdb|1KHB|A Chain A, Pepck Complex With Nonhydrolyzable Gtp Analog, Native Data
pdb|1KHF|A Chain A, Pepck Complex With Pep
pdb|1KHG|A Chain A, Pepck
pdb|1M51|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|1NHX|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|2GMV|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|2GMV|B Chain B, Pepck Complex With A Gtp-Competitive Inhibitor
Length = 625
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 5/31 (16%)
Query: 182 NLLLRNPKVLGYNVDCKGDCMAQCTRCWVRF 212
NL + NP + G+ V+C GD +A W++F
Sbjct: 295 NLAMMNPSLPGWKVECVGDDIA-----WMKF 320
>pdb|3MOE|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Beta-Sulfopyruvate And Gtp
pdb|3MOF|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Oxalate And Gtp
pdb|3MOF|B Chain B, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Oxalate And Gtp
pdb|3MOH|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Phosphoglycolate And Gdp
pdb|3MOH|B Chain B, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Phosphoglycolate And Gdp
Length = 624
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 5/31 (16%)
Query: 182 NLLLRNPKVLGYNVDCKGDCMAQCTRCWVRF 212
NL + NP + G+ V+C GD +A W++F
Sbjct: 294 NLAMMNPTLPGWKVECVGDDIA-----WMKF 319
>pdb|2QF2|A Chain A, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid And
Gdp.
pdb|2QF2|B Chain B, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid And
Gdp.
pdb|2QEW|A Chain A, Rat Cytosolic Pepck, In Complex With Manganese Ion.
pdb|2QEY|A Chain A, Rat Cytosolic Pepck In Complex With Gtp
pdb|2QF1|A Chain A, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid.
pdb|2RK7|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate
pdb|2RK7|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate
pdb|2RK8|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphonoformate
pdb|2RK8|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphonoformate
pdb|2RKA|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate
pdb|2RKA|C Chain C, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate
pdb|2RKD|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With 3-
Phosphonopropionate
pdb|2RKE|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Sulfoacetate.
pdb|3DT2|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT4|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT4|C Chain C, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT7|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With Beta-
Sulfopyruvate And Gtp
pdb|3DT7|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With Beta-
Sulfopyruvate And Gtp
pdb|3DTB|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate And Gdp
pdb|3DTB|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate And Gdp
Length = 624
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 5/31 (16%)
Query: 182 NLLLRNPKVLGYNVDCKGDCMAQCTRCWVRF 212
NL + NP + G+ V+C GD +A W++F
Sbjct: 294 NLAMMNPTLPGWKVECVGDDIA-----WMKF 319
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 0.136 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,593,262
Number of Sequences: 62578
Number of extensions: 222080
Number of successful extensions: 645
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 642
Number of HSP's gapped (non-prelim): 18
length of query: 212
length of database: 14,973,337
effective HSP length: 95
effective length of query: 117
effective length of database: 9,028,427
effective search space: 1056325959
effective search space used: 1056325959
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: 49 (23.5 bits)