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= 008232
(573 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SO4|A Chain A, Methionine-Adenosyltransferase From Entamoeba Histolytica
pdb|3SO4|B Chain B, Methionine-Adenosyltransferase From Entamoeba Histolytica
pdb|3SO4|C Chain C, Methionine-Adenosyltransferase From Entamoeba Histolytica
pdb|3SO4|D Chain D, Methionine-Adenosyltransferase From Entamoeba Histolytica
Length = 415
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 35/67 (52%), Gaps = 8/67 (11%)
Query: 34 ISKSILESGL-----KPLSYHLGLNDPSHNSNPNADDHGWGYCTEEQLEEILLKNLEFLY 88
I+KS++ +GL LSY +G+ SH + N + +G G C E L +I+ KN +
Sbjct: 306 IAKSLVHAGLCHRVLVQLSYAIGV---SHPLSINVNTYGTGICDESILVDIVNKNFDMRP 362
Query: 89 NEAISKL 95
I +L
Sbjct: 363 GMIIKEL 369
>pdb|3NV9|A Chain A, Crystal Structure Of Entamoeba Histolytica Malic Enzyme
pdb|3NV9|B Chain B, Crystal Structure Of Entamoeba Histolytica Malic Enzyme
Length = 487
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 60/141 (42%), Gaps = 12/141 (8%)
Query: 305 GHSQPQACVSVMAGRDASLVASGAEVTVENCEDSKNLK---DPNGVDSVLSKMRDLNIDE 361
G P + VM G+ + G V C DSKN + DP+ V + +++
Sbjct: 106 GDVTPPGGLGVMEGKALLMKYLGGIDAVPICIDSKNKEGKNDPDAVIEFVQRIQHTFGAI 165
Query: 362 NLETITDDQKDEIVVTMLHQIKDLERQVKERKEWAHQKAMQAARKLSNDLTELKMLRMER 421
NLE I+ ++I D+ R+ + W + A+ L+ L LK+++ +
Sbjct: 166 NLEDISQPN--------CYKILDVLRESCDIPVWHDDQQGTASVTLAGLLNALKLVKKDI 217
Query: 422 EETQRLKKGKQTLEDTTMKRL 442
E + + G + +TT RL
Sbjct: 218 HECRMVFIGAGS-SNTTCLRL 237
>pdb|2RQ7|A Chain A, Solution Structure Of The Epsilon Subunit Chimera
Combining The N-Terminal Beta-Sandwich Domain From T.
Elongatus Bp-1 F1 And The C-Terminal Alpha-Helical
Domain From Spinach Chloroplast F1
Length = 134
Score = 29.3 bits (64), Expect = 5.7, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 10/83 (12%)
Query: 388 QVKERKEWAHQKAMQAARKLSNDLTELKMLRMEREETQRLKKGKQTLEDTTMKRLSEMEN 447
+V++ +EW M ++ N+ + + ER +T ++ +QTLE E
Sbjct: 50 RVRQDREWVAIALMGGFAEVENNEVTILVNGAERGDTIDPQEAQQTLEIA--------EA 101
Query: 448 ALRKASG--QVDRANAAVRRLET 468
LRKA G Q AN A+RR T
Sbjct: 102 NLRKAEGARQKIEANLALRRART 124
>pdb|2XTA|A Chain A, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With Acetyl-Coa (Triclinic Form)
pdb|2XTA|B Chain B, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With Acetyl-Coa (Triclinic Form)
pdb|2XTA|C Chain C, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With Acetyl-Coa (Triclinic Form)
pdb|2XTA|D Chain D, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With Acetyl-Coa (Triclinic Form)
pdb|2Y0P|A Chain A, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate And Acetyl-Coa
pdb|2Y0P|B Chain B, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate And Acetyl-Coa
pdb|2Y0P|C Chain C, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate And Acetyl-Coa
pdb|2Y0P|D Chain D, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate And Acetyl-Coa
pdb|2YIC|A Chain A, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase (Triclinic
Form)
pdb|2YIC|B Chain B, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase (Triclinic
Form)
pdb|2YIC|C Chain C, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase (Triclinic
Form)
pdb|2YIC|D Chain D, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase (Triclinic
Form)
pdb|2YID|A Chain A, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate
pdb|2YID|B Chain B, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate
pdb|2YID|C Chain C, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate
pdb|2YID|D Chain D, Crystal Structure Of The Suca Domain Of Mycobacterium
Smegmatis Alpha-Ketoglutarate Decarboxylase In Complex
With The Enamine-Thdp Intermediate
pdb|2XT9|A Chain A, Crystal Structure Of Mycobacterium Smegmatis Alpha-
Ketoglutarate Decarboxylase In Complex With Gara
Length = 868
Score = 28.9 bits (63), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 436 DTTMKRLSEMENALRKASGQVDRANAAVRRLETENAEIRAEMEA-----SKLSAA 485
D +MK E E+ALR GQ++R VR LE E +EA SKL+ A
Sbjct: 424 DISMK---EAEDALRDYQGQLERVFNEVRELEKHEIEPSESVEADQQIPSKLATA 475
>pdb|2XT6|A Chain A, Crystal Structure Of Mycobacterium Smegmatis
Alpha-Ketoglutarate Decarboxylase Homodimer
(Orthorhombic Form)
pdb|2XT6|B Chain B, Crystal Structure Of Mycobacterium Smegmatis
Alpha-Ketoglutarate Decarboxylase Homodimer
(Orthorhombic Form)
Length = 1113
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 436 DTTMKRLSEMENALRKASGQVDRANAAVRRLETENAEIRAEMEA-----SKLSAA 485
D +MK E E+ALR GQ++R VR LE E +EA SKL+ A
Sbjct: 669 DISMK---EAEDALRDYQGQLERVFNEVRELEKHEIEPSESVEADQQIPSKLATA 720
>pdb|1DG3|A Chain A, Structure Of Human Guanylate Binding Protein-1 In
Nucleotide Free Form
pdb|1F5N|A Chain A, Human Guanylate Binding Protein-1 In Complex With The Gtp
Analogue, Gmppnp
Length = 592
Score = 28.9 bits (63), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 46/85 (54%), Gaps = 2/85 (2%)
Query: 378 MLHQIKDLERQVKERKEWAHQKAM-QAARKLSNDLTELKMLRMEREETQRLKKGKQTLED 436
MLH+++ Q+ E+KE ++Q+ + Q K+ ND +L + ER +L++ +Q L++
Sbjct: 505 MLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQL-LKEQERTLALKLQEQEQLLKE 563
Query: 437 TTMKRLSEMENALRKASGQVDRANA 461
K M+N ++ ++ R A
Sbjct: 564 GFQKESRIMKNEIQDLQTKMRRRKA 588
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
0.317 0.130 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,664,125
Number of Sequences: 62578
Number of extensions: 479083
Number of successful extensions: 1355
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1336
Number of HSP's gapped (non-prelim): 40
length of query: 573
length of database: 14,973,337
effective HSP length: 104
effective length of query: 469
effective length of database: 8,465,225
effective search space: 3970190525
effective search space used: 3970190525
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)