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= 026126
(243 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YX2|A Chain A, Crystal Structure Of The Probable Aminomethyltransferase
From Bacillus Subtilis
pdb|1YX2|B Chain B, Crystal Structure Of The Probable Aminomethyltransferase
From Bacillus Subtilis
Length = 365
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 108 DLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTARTIDIAHAWIM-KNA 166
D+SH G + VSG+D + FL T + L G+ T P T+D + +N
Sbjct: 51 DVSHXGEVEVSGNDSLSFLQRLXTNDVSALTPGRAQYTAXCYPDGGTVDDLLIYQKGENR 110
Query: 167 VILVVSPLTCSSITEMLNKYVFFADKVEIQDITKQTCLFVVVGPKSNQVMRDLNLGDL 224
+LV++ ++ A V+I + + Q L V GPK+ ++++L D+
Sbjct: 111 YLLVINASNIDKDLAWXKEHA--AGDVQIDNQSDQIALLAVQGPKAEAILKNLTDADV 166
>pdb|3TTG|A Chain A, Crystal Structure Of Putative Aminomethyltransferase From
Leptospirillum Rubarum
Length = 355
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 54/117 (46%), Gaps = 4/117 (3%)
Query: 115 IRVSGDDRIQFLHNQSTANFEILREGQGC--DTVFVTPTARTIDIAHAWIMKNAVILVVS 172
I V G+DR FL Q A+ +IL++ + + F+ P AR + A ++ + L
Sbjct: 48 IFVEGEDRKNFL--QGIASQDILKQDEKSLSYSFFLNPKARILFDAWCGNFEDKIALFPP 105
Query: 173 PLTCSSITEMLNKYVFFADKVEIQDITKQTCLFVVVGPKSNQVMRDLNLGDLVGEAY 229
T L KY+FF K +I D + +VGP++ V+ L + G ++
Sbjct: 106 AGTREEFVNHLKKYLFFRTKAKITDXSDHFREIRLVGPETISVLLSLFDNNFSGSSF 162
>pdb|1WOO|A Chain A, Crystal Structure Of T-Protein Of The Glycine Cleavage
System
pdb|1WOP|A Chain A, Crystal Structure Of T-Protein Of The Glycine Cleavage
System
pdb|1WOR|A Chain A, Crystal Structure Of T-Protein Of The Glycine Cleavage
System
pdb|1WOS|A Chain A, Crystal Structure Of T-Protein Of The Glycine Cleavage
System
Length = 364
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 63/149 (42%), Gaps = 18/149 (12%)
Query: 95 EALDAADNGVAAVDLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTART 154
E + A V D+SH G V G + + F+ T +F L +G+ +V
Sbjct: 34 EEVMAVRKSVGMFDVSHMGEFLVKGPEAVSFIDFLITNDFSSLPDGKAIYSVMCNENGGI 93
Query: 155 IDIAHAWIMKNAVILVVSP------LTCSSITEMLNKYVFFADK---VEIQDITKQTCLF 205
ID + V+ VSP + ++I + N ++ K VE+ +I+ T L
Sbjct: 94 ID--------DLVVYKVSPDEALMVVNAANIEKDFN-WIKSHSKNFDVEVSNISDTTALI 144
Query: 206 VVVGPKSNQVMRDLNLGDLVGEAYGTHRH 234
GPK+ + +++L L AY + R
Sbjct: 145 AFQGPKAQETLQELVEDGLEEIAYYSFRK 173
>pdb|1VRQ|A Chain A, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96 In Complex With Folinic
Acid
pdb|1X31|A Chain A, Crystal Structure Of Heterotetrameric Sarcosine Oxidase
From Corynebacterium Sp. U-96
pdb|3AD7|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Methylthio Acetate
pdb|3AD8|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Pyrrole 2-Carboxylate
pdb|3AD9|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 Sarcosine-Reduced Form
pdb|3ADA|A Chain A, Heterotetrameric Sarcosine Oxidase From Corynebacterium
Sp. U-96 In Complex With Sulfite
Length = 964
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 31/142 (21%), Positives = 59/142 (41%), Gaps = 12/142 (8%)
Query: 90 FGNDGEALD--------AADNGVAAVDLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQ 141
+ DGE++D A + V +D S G+I + G D +FL+ T + L+ G
Sbjct: 601 YPQDGESMDEAVYRECKAVRDSVGMLDASTLGKIEIRGKDAAEFLNRMYTNGYTKLKVGM 660
Query: 142 GCDTVFVTPTARTIDIAHAW-IMKNAVILVVSPLTCSSITEMLNKYV---FFADKVEIQD 197
G V D + ++ ++ + + + + L +++ + V
Sbjct: 661 GRYGVMCKADGMIFDDGVTLRLAEDRFLMHTTTGGAADVLDWLEEWLQTEWPELDVTCTS 720
Query: 198 ITKQTCLFVVVGPKSNQVMRDL 219
+T+Q VVGP+S V+ L
Sbjct: 721 VTEQLATVAVVGPRSRDVIAKL 742
>pdb|1V5V|A Chain A, Crystal Structure Of A Component Of Glycine Cleavage
System: T-Protein From Pyrococcus Horikoshii Ot3 At 1.5
A Resolution
pdb|1V5V|B Chain B, Crystal Structure Of A Component Of Glycine Cleavage
System: T-Protein From Pyrococcus Horikoshii Ot3 At 1.5
A Resolution
Length = 401
Score = 35.0 bits (79), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 33/131 (25%), Positives = 52/131 (39%), Gaps = 14/131 (10%)
Query: 99 AADNGVAAVDLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTARTIDIA 158
A N V D+SH G I G D ++FL +T + G T+ + D
Sbjct: 42 AVRNAVGIFDVSHMGEIVFRGKDALKFLQYVTTNDISKPPAISGTYTLVLNERGAIKDET 101
Query: 159 HAWIMKNAVILVVSPLTC-SSITEMLNKYVFFADK---------VEIQDITKQTCLFVVV 208
+ M N L++ C S E L + + + +EI+ T +F V
Sbjct: 102 LVFNMGNNEYLMI----CDSDAFEKLYAWFTYLKRTIEQFTKLDLEIELKTYDIAMFAVQ 157
Query: 209 GPKSNQVMRDL 219
GPK+ + +DL
Sbjct: 158 GPKARDLAKDL 168
>pdb|2GAG|A Chain A, Heteroteterameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 965
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 28/125 (22%), Positives = 53/125 (42%), Gaps = 4/125 (3%)
Query: 99 AADNGVAAVDLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTARTIDIA 158
A + V +D + G+I + G D +FL+ T + L+ G G V D
Sbjct: 619 AVRDSVGMLDATTLGKIEIRGKDAAEFLNRIYTNGYTKLKVGMGRYGVMCKADGMIFDDG 678
Query: 159 HAW-IMKNAVILVVSPLTCSSITEMLNKYV--FFAD-KVEIQDITKQTCLFVVVGPKSNQ 214
+ ++ +L + + + + L +++ + D V +T+Q VVGP+S
Sbjct: 679 VTLRLAEDRFLLHTTTGGAADVLDWLEEWLQTEWPDLDVTCTSVTEQLATVAVVGPRSRD 738
Query: 215 VMRDL 219
V+ L
Sbjct: 739 VIAKL 743
>pdb|2GAH|A Chain A, Heterotetrameric Sarcosine: Structure Of A Diflavin
Metaloenzyme At 1.85 A Resolution
Length = 965
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 28/125 (22%), Positives = 53/125 (42%), Gaps = 4/125 (3%)
Query: 99 AADNGVAAVDLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTARTIDIA 158
A + V +D + G+I + G D +FL+ T + L+ G G V D
Sbjct: 619 AVRDSVGXLDATTLGKIEIRGKDAAEFLNRIYTNGYTKLKVGXGRYGVXCKADGXIFDDG 678
Query: 159 HAW-IMKNAVILVVSPLTCSSITEMLNKYV--FFAD-KVEIQDITKQTCLFVVVGPKSNQ 214
+ ++ +L + + + + L +++ + D V +T+Q VVGP+S
Sbjct: 679 VTLRLAEDRFLLHTTTGGAADVLDWLEEWLQTEWPDLDVTCTSVTEQLATVAVVGPRSRD 738
Query: 215 VMRDL 219
V+ L
Sbjct: 739 VIAKL 743
>pdb|3GIR|A Chain A, Crystal Structure Of Glycine Cleavage System
Aminomethyltransferase T From Bartonella Henselae
Length = 393
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 47/115 (40%), Gaps = 4/115 (3%)
Query: 108 DLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTARTI-DIAHAWIMKNA 166
D+SH I V G ++FL + +L+ GQ + + A + D+ + +
Sbjct: 80 DISHMKLIAVEGPKAVEFLSYALPVDAALLKIGQSRYSYLLNERAGILDDLILTRLAECR 139
Query: 167 VILVVSPLTCSSITEMLNKYVFFADKVEIQDITKQTCLFVVVGPKSNQVMRDLNL 221
+LV + + L K F E Q I + L + GP++ V+ D L
Sbjct: 140 FMLVANAGNAQADFAELEKRAF---GFECQVIALERVLLALQGPQAAAVLADAGL 191
>pdb|1WSR|A Chain A, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSR|B Chain B, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSV|A Chain A, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
pdb|1WSV|B Chain B, Crystal Structure Of Human T-Protein Of Glycine Cleavage
System
Length = 375
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/118 (22%), Positives = 46/118 (38%), Gaps = 13/118 (11%)
Query: 108 DLSHFGRIRVSGDDRIQFLHNQSTANFEILREGQGCDTVFVTPTARTIDIAHAWIMKNAV 167
D+SH + ++ G DR++ + + + LR QG ++F +D
Sbjct: 52 DVSHMLQTKILGSDRVKLMESLVVGDIAELRPNQGTLSLFTNEAGGILDDLIVTNTSEGH 111
Query: 168 ILVVSPLTCSSITEMLNKYVFFADKV-EIQDITKQT-------CLFVVVGPKSNQVMR 217
+ VVS C DKV E+Q+ + L + GP + QV++
Sbjct: 112 LYVVSNAGCWE-----KDLALMQDKVRELQNQGRDVGLEVLDNALLALQGPTAAQVLQ 164
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 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,746,870
Number of Sequences: 62578
Number of extensions: 260632
Number of successful extensions: 750
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 735
Number of HSP's gapped (non-prelim): 14
length of query: 243
length of database: 14,973,337
effective HSP length: 96
effective length of query: 147
effective length of database: 8,965,849
effective search space: 1317979803
effective search space used: 1317979803
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: 50 (23.9 bits)