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= 029862
(186 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SMV|A Chain A, X-Ray Crystal Structure Of L-Azetidine-2-Carboxylate
Hydrolase
Length = 240
Score = 33.1 bits (74), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 35/85 (41%), Gaps = 7/85 (8%)
Query: 69 INLEDSITKDCGSSSKCNKFSSAFETAEHETPRMPPIRPPEKRQRVPSAYNRFIKEEIQR 128
+N + K G + ++ F +E+P+ + + + Y+R KE
Sbjct: 25 VNALQPLAKRTGKTFTSDELLEVF--GRNESPQQTETPGALYQDILRAVYDRIAKE---- 78
Query: 129 IKASNPDISHREAFSTAAKNWAHFP 153
PD + RE F T+ KNW FP
Sbjct: 79 -WGLEPDAAEREEFGTSVKNWPAFP 102
>pdb|3TQ6|A Chain A, Crystal Structure Of Human Mitochondrial Transcription
Factor A, Tfam Or Mttfa, Bound To The Light Strand
Promoter Lsp
pdb|3TQ6|B Chain B, Crystal Structure Of Human Mitochondrial Transcription
Factor A, Tfam Or Mttfa, Bound To The Light Strand
Promoter Lsp
Length = 214
Score = 32.0 bits (71), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 116 SAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP 153
S+Y RF KE++ KA NPD E A+ W P
Sbjct: 15 SSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 52
>pdb|3TMM|A Chain A, Tfam Imposes A U-Turn On Mitochondrial Dna
Length = 238
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%)
Query: 116 SAYNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFP 153
S+Y RF KE++ KA NPD E A+ W P
Sbjct: 47 SSYLRFSKEQLPIFKAQNPDAKTTELIRRIAQRWRELP 84
>pdb|1R5A|A Chain A, Glutathione S-Transferase
Length = 218
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 151 HFPHIHFGLKLDGNKQAKLDKAAAYAEGTQK 181
+FP IH G LD K+AKL +A + E K
Sbjct: 114 YFPTIHLGAHLDQTKKAKLAEALGWFEAMLK 144
>pdb|1DVP|A Chain A, Crystal Structure Of The Vhs And Fyve Tandem Domains Of
Hrs, A Protein Involved In Membrane Trafficking And
Signal Transduction
Length = 220
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 41/93 (44%), Gaps = 15/93 (16%)
Query: 73 DSITKDCG--------SSSKCNKFSSAFETAEHETPRMPPIRPPEKRQRVPSAYNRF--I 122
+SI K+CG + C FSS E+ HE R + + + +++ I
Sbjct: 67 ESIVKNCGAPVHEEVFTKENCEMFSSFLESTPHENVRQKMLELVQTWAYAFRSSDKYQAI 126
Query: 123 KEEIQRIKASN---PDISHREAFSTA--AKNWA 150
K+ + +KA P++ +A TA A NWA
Sbjct: 127 KDTMTILKAKGHTFPELREADAMFTADTAPNWA 159
>pdb|1YJ8|A Chain A, Initial Structural Analysis Of Plasmodium Falciparum
Glycerol-3- Phosphate Dehydrogenase
pdb|1YJ8|B Chain B, Initial Structural Analysis Of Plasmodium Falciparum
Glycerol-3- Phosphate Dehydrogenase
pdb|1YJ8|C Chain C, Initial Structural Analysis Of Plasmodium Falciparum
Glycerol-3- Phosphate Dehydrogenase
Length = 375
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 12 YVHCNYCNTILAVSVPCSSLFNIVTVRCGHCANL 45
Y N N + V + C +L NI+T+ CG C L
Sbjct: 207 YFKINCVNETIEVEI-CGALKNIITLACGFCDGL 239
>pdb|3TK7|A Chain A, 2.0 Angstrom Resolution Crystal Structure Of Transaldolase
B (Tala) From Francisella Tularensis In Covalent Complex
With Fructose 6- Phosphate
pdb|3TK7|B Chain B, 2.0 Angstrom Resolution Crystal Structure Of Transaldolase
B (Tala) From Francisella Tularensis In Covalent Complex
With Fructose 6- Phosphate
pdb|3TNO|A Chain A, 1.65 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis In
Covalent Complex With Sedoheptulose-7- Phosphate
pdb|3TNO|B Chain B, 1.65 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis In
Covalent Complex With Sedoheptulose-7- Phosphate
pdb|3UPB|A Chain A, 1.5 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis In Covalent Complex With
Arabinose-5-Phosphate
pdb|3UPB|B Chain B, 1.5 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis In Covalent Complex With
Arabinose-5-Phosphate
pdb|4E0C|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis (Phosphate-Free)
pdb|4E0C|B Chain B, 1.8 Angstrom Resolution Crystal Structure Of Transaldolase
From Francisella Tularensis (Phosphate-Free)
Length = 345
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 118 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLK----LDGNKQAKLDKAA 173
Y+ + E I ++KA+NPD++ + K A + FG+K ++G +++D
Sbjct: 73 YSNLVAETISKVKANNPDLNSDD----LVKEIAIEILVSFGIKILDVIEGKVSSEVDARV 128
Query: 174 AYAEGT 179
++ T
Sbjct: 129 SFNSAT 134
>pdb|3TE9|A Chain A, 1.8 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Fructose 6-Phosphate
pdb|3TE9|B Chain B, 1.8 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Fructose 6-Phosphate
pdb|3TKF|A Chain A, 1.5 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Sedoheptulose 7-Phosphate.
pdb|3TKF|B Chain B, 1.5 Angstrom Resolution Crystal Structure Of K135m Mutant
Of Transaldolase B (Tala) From Francisella Tularensis In
Complex With Sedoheptulose 7-Phosphate
Length = 345
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 118 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLK----LDGNKQAKLDKAA 173
Y+ + E I ++KA+NPD++ + K A + FG+K ++G +++D
Sbjct: 73 YSNLVAETISKVKANNPDLNSDD----LVKEIAIEILVSFGIKILDVIEGKVSSEVDARV 128
Query: 174 AYAEGT 179
++ T
Sbjct: 129 SFNSAT 134
>pdb|3IGX|A Chain A, 1.85 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis.
pdb|3IGX|B Chain B, 1.85 Angstrom Resolution Crystal Structure Of
Transaldolase B (Tala) From Francisella Tularensis
Length = 324
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 33/66 (50%), Gaps = 8/66 (12%)
Query: 118 YNRFIKEEIQRIKASNPDISHREAFSTAAKNWAHFPHIHFGLK----LDGNKQAKLDKAA 173
Y+ + E I ++KA+NPD++ + K A + FG+K ++G +++D
Sbjct: 52 YSNLVAETISKVKANNPDLNSDD----LVKEIAIEILVSFGIKILDVIEGKVSSEVDARV 107
Query: 174 AYAEGT 179
++ T
Sbjct: 108 SFNSAT 113
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 0.130 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,330,038
Number of Sequences: 62578
Number of extensions: 195711
Number of successful extensions: 586
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 575
Number of HSP's gapped (non-prelim): 17
length of query: 186
length of database: 14,973,337
effective HSP length: 93
effective length of query: 93
effective length of database: 9,153,583
effective search space: 851283219
effective search space used: 851283219
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: 48 (23.1 bits)