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= 003087
(849 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3V70|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 1
pdb|3V70|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 1
Length = 247
Score = 32.0 bits (71), Expect = 1.4, Method: Composition-based stats.
Identities = 21/79 (26%), Positives = 37/79 (46%), Gaps = 6/79 (7%)
Query: 312 IITMIDVLSGLKVKETDP--KLRGHVFLLESKSVEERFNVSNYDRETVYSNHTVQLIEER 369
++ D+ S +V +TDP + RGH +LL + V+ R T V+ + +
Sbjct: 74 VVDTPDIFSS-QVSKTDPGCEERGHCYLLSAPGPHALLLVTQLGRFTAQDQQAVRQVRDM 132
Query: 370 FNRSGNTMLYWSLISFSER 388
F G +L W +I F+ +
Sbjct: 133 F---GEDVLKWMVIVFTRK 148
>pdb|2V36|A Chain A, Crystal Structure Of Gamma-Glutamyl Transferase From
Bacillus Subtilis
pdb|2V36|C Chain C, Crystal Structure Of Gamma-Glutamyl Transferase From
Bacillus Subtilis
Length = 376
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 21/90 (23%)
Query: 321 GLKVKETDPKLRGHVFLLESKSVEERFNVSNYDRETVYSNHTVQLIEERFNRSGNTMLYW 380
G ++ T P G +FLL+ + + FN+S YD V S QL+ E +
Sbjct: 256 GYQIATTPPPSSGGIFLLQMPKILDHFNLSQYD---VRSWEKYQLLAETMH--------- 303
Query: 381 SLISFSERSV----PEMYNILIS---HRNY 403
+S+++R+ PE N+ + H +Y
Sbjct: 304 --LSYADRASYAGDPEFVNVPLKGLLHPDY 331
>pdb|2D2I|A Chain A, Crystal Structure Of Nadp-Dependent Glyceraldehyde-3-
Phosphate Dehydrogenase From Synechococcus Sp. Complexed
With Nadp+
pdb|2D2I|B Chain B, Crystal Structure Of Nadp-Dependent Glyceraldehyde-3-
Phosphate Dehydrogenase From Synechococcus Sp. Complexed
With Nadp+
pdb|2D2I|O Chain O, Crystal Structure Of Nadp-Dependent Glyceraldehyde-3-
Phosphate Dehydrogenase From Synechococcus Sp. Complexed
With Nadp+
pdb|2D2I|P Chain P, Crystal Structure Of Nadp-Dependent Glyceraldehyde-3-
Phosphate Dehydrogenase From Synechococcus Sp. Complexed
With Nadp+
pdb|2D2I|Q Chain Q, Crystal Structure Of Nadp-Dependent Glyceraldehyde-3-
Phosphate Dehydrogenase From Synechococcus Sp. Complexed
With Nadp+
pdb|2D2I|R Chain R, Crystal Structure Of Nadp-Dependent Glyceraldehyde-3-
Phosphate Dehydrogenase From Synechococcus Sp. Complexed
With Nadp+
pdb|2DUU|A Chain A, Crystal Structure Of Apo-Form Of Nadp-Dependent
Glyceraldehyde-3- Phosphate Dehydrogenase From
Synechococcus Sp.
pdb|2DUU|B Chain B, Crystal Structure Of Apo-Form Of Nadp-Dependent
Glyceraldehyde-3- Phosphate Dehydrogenase From
Synechococcus Sp.
pdb|2DUU|O Chain O, Crystal Structure Of Apo-Form Of Nadp-Dependent
Glyceraldehyde-3- Phosphate Dehydrogenase From
Synechococcus Sp.
pdb|2DUU|P Chain P, Crystal Structure Of Apo-Form Of Nadp-Dependent
Glyceraldehyde-3- Phosphate Dehydrogenase From
Synechococcus Sp.
pdb|2DUU|Q Chain Q, Crystal Structure Of Apo-Form Of Nadp-Dependent
Glyceraldehyde-3- Phosphate Dehydrogenase From
Synechococcus Sp.
pdb|2DUU|R Chain R, Crystal Structure Of Apo-Form Of Nadp-Dependent
Glyceraldehyde-3- Phosphate Dehydrogenase From
Synechococcus Sp
Length = 380
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 29/65 (44%)
Query: 352 YDRETVYSNHTVQLIEERFNRSGNTMLYWSLISFSERSVPEMYNILISHRNYQTAIDFAN 411
YD E YS V L E +SG L +L+ S+ S+P ++ R + + D N
Sbjct: 316 YDNEWGYSQRVVDLAELAARKSGRLGLVQTLLISSQDSLPLTGGFFVAKREHPRSQDSIN 375
Query: 412 YHGLD 416
G D
Sbjct: 376 PSGPD 380
>pdb|2VDU|B Chain B, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
Complex
pdb|2VDU|D Chain D, Structure Of Trm8-Trm82, The Yeast Trna M7g Methylation
Complex
Length = 450
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 49/103 (47%), Gaps = 14/103 (13%)
Query: 236 LISPQGKFVATSDTNGCLYIFEMDKDNFSLSKFACGERFDLQVADSLFDGRTKPISDITD 295
L S + + +A +D++ L +F++DK + ++ K +RF F R IS D
Sbjct: 110 LTSDESRLIACADSDKSLLVFDVDKTSKNVLKLR--KRF-------CFSKRPNAISIAED 160
Query: 296 FAWWSDNILILARKSSIITMIDVLSGLKVKETDPKLRGHVFLL 338
D +I+A K + ID+ S + K T + GHV +L
Sbjct: 161 -----DTTVIIADKFGDVYSIDINSIPEEKFTQEPILGHVSML 198
>pdb|3A75|A Chain A, Crystal Structure Of Glutamate Complex Of Halotolerant
γ-Glutamyltranspeptidase From Bacillus Subtilis
pdb|3A75|C Chain C, Crystal Structure Of Glutamate Complex Of Halotolerant
γ-Glutamyltranspeptidase From Bacillus Subtilis
Length = 384
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 21/90 (23%)
Query: 321 GLKVKETDPKLRGHVFLLESKSVEERFNVSNYDRETVYSNHTVQLIEERFNRSGNTMLYW 380
G ++ T P G +FLL+ + + FN+S YD V S QL+ E +
Sbjct: 264 GYQIATTPPPSSGGIFLLQMLKILDHFNLSQYD---VRSWEKYQLLAETMH--------- 311
Query: 381 SLISFSERSV----PEMYNILIS---HRNY 403
+S+++R+ PE N+ + H +Y
Sbjct: 312 --LSYADRASYAGDPEFVNVPLKGLLHPDY 339
>pdb|1FC4|A Chain A, 2-Amino-3-Ketobutyrate Coa Ligase
pdb|1FC4|B Chain B, 2-Amino-3-Ketobutyrate Coa Ligase
Length = 401
Score = 29.3 bits (64), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 47 GIFNCTGLGASIYGA--WSESHDVLGIVDDTHTVYFFKANG 85
G+F+ G+ A++ G ++ +D L VDD+H V F NG
Sbjct: 185 GVFSXDGVIANLKGVCDLADKYDALVXVDDSHAVGFVGENG 225
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 0.135 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 24,498,738
Number of Sequences: 62578
Number of extensions: 1003315
Number of successful extensions: 2516
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 2510
Number of HSP's gapped (non-prelim): 13
length of query: 849
length of database: 14,973,337
effective HSP length: 107
effective length of query: 742
effective length of database: 8,277,491
effective search space: 6141898322
effective search space used: 6141898322
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: 56 (26.2 bits)