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= 012917
(453 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3AOE|A Chain A, Crystal Structure Of Hetero-Hexameric Glutamate
Dehydrogenase From Thermus Thermophilus (Leu Bound Form)
pdb|3AOE|B Chain B, Crystal Structure Of Hetero-Hexameric Glutamate
Dehydrogenase From Thermus Thermophilus (Leu Bound Form)
Length = 424
Score = 32.7 bits (73), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 121 RILKLRVRGSRRDLTQDTAEEEVCVVMPGVLARFDGSEIQKMLQRWFQDSNSNFW-DQKP 179
RI+ G D E+ +V+P V+A G + W QD NS FW +++
Sbjct: 318 RIVAEGANGPTTPAADDILLEKGVLVVPDVIANAGGVTVSYF--EWVQDFNSYFWTEEEI 375
Query: 180 KQRDSEDLENSYERLPHQLWNVSK 203
R L N++E +W V++
Sbjct: 376 NARLERVLRNAFE----AVWQVAQ 395
>pdb|3AOG|A Chain A, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|B Chain B, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|C Chain C, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|D Chain D, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|E Chain E, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|F Chain F, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|G Chain G, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|H Chain H, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|I Chain I, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|J Chain J, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|K Chain K, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
pdb|3AOG|L Chain L, Crystal Structure Of Glutamate Dehydrogenase (Gdhb) From
Thermus Thermophilus (Glu Bound Form)
Length = 440
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 121 RILKLRVRGSRRDLTQDTAEEEVCVVMPGVLARFDGSEIQKMLQRWFQDSNSNFW-DQKP 179
RI+ G D E+ +V+P V+A G + W QD NS FW +++
Sbjct: 334 RIVAEGANGPTTPAADDILLEKGVLVVPDVIANAGGVTVSYF--EWVQDFNSYFWTEEEI 391
Query: 180 KQRDSEDLENSYERLPHQLWNVSK 203
R L N++E +W V++
Sbjct: 392 NARLERVLRNAFE----AVWQVAQ 411
>pdb|3BKX|A Chain A, Crystal Structure Of Cyclopropane-fatty-acyl-phospholipid
Synthase- Like Protein (yp_807781.1) From Lactobacillus
Casei Atcc 334 At 1.85 A Resolution
pdb|3BKX|B Chain B, Crystal Structure Of Cyclopropane-fatty-acyl-phospholipid
Synthase- Like Protein (yp_807781.1) From Lactobacillus
Casei Atcc 334 At 1.85 A Resolution
Length = 275
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 386 APRKGIIEVWQMRTGPRLLTIQCAKG 411
A R I E WQ++ G ++L I C +G
Sbjct: 30 AHRLAIAEAWQVKPGEKILEIGCGQG 55
>pdb|3OKZ|A Chain A, Crystal Structure Of Protein Gbs0355 From Streptococcus
Agalactiae, Northeast Structural Genomics Consortium
Target Sar127
pdb|3OKZ|B Chain B, Crystal Structure Of Protein Gbs0355 From Streptococcus
Agalactiae, Northeast Structural Genomics Consortium
Target Sar127
Length = 306
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 248 EDRSRSLVGAILSKVVPATFSTISSLSKMIWRSEQSPK-----KSEPKPQSFARASPLTC 302
+ R R ++ +L K++ ++ISS K++ + + S+ P A L
Sbjct: 183 QKRQREVIQKVLKKILA--LNSISSYKKILSAVSNNXQTNIEISSKTIPNLLAYKDSLEH 240
Query: 303 LKDHPRKGERLTLSPSGSLAAIT 325
+K + KGE TLS GS +T
Sbjct: 241 IKSYQLKGEDATLSDGGSYQILT 263
>pdb|4I79|A Chain A, Crystal Structure Of Human Nup43
pdb|4I79|B Chain B, Crystal Structure Of Human Nup43
Length = 399
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 25/102 (24%), Positives = 42/102 (41%), Gaps = 8/102 (7%)
Query: 233 VTIGEDSVISAFRLSEDRS-RSLVGAILSKVVPATF------STISSLSKM-IWRSEQSP 284
VT+GED I+ FR + R++ A S + TF T++S+ ++ IW Q
Sbjct: 164 VTVGEDGRINLFRADHKEAVRTIDNADSSTLHAVTFLRTPEILTVNSIGQLKIWDFRQQG 223
Query: 285 KKSEPKPQSFARASPLTCLKDHPRKGERLTLSPSGSLAAITD 326
+ PL C+ HP + + + +I D
Sbjct: 224 NEPSQILSLTGDRVPLHCVDRHPNQQHVVATGGQDGMLSIWD 265
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 0.133 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,142,540
Number of Sequences: 62578
Number of extensions: 524315
Number of successful extensions: 1000
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 999
Number of HSP's gapped (non-prelim): 7
length of query: 453
length of database: 14,973,337
effective HSP length: 102
effective length of query: 351
effective length of database: 8,590,381
effective search space: 3015223731
effective search space used: 3015223731
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: 53 (25.0 bits)