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= 006633
(637 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2AVN|A Chain A, Crystal Structure Of A UbiquinoneMENAQUINONE BIOSYNTHESIS
Methyltransferase-Related Protein (Tm1389) From
Thermotoga Maritima Msb8 At 2.35 A Resolution
pdb|2AVN|B Chain B, Crystal Structure Of A UbiquinoneMENAQUINONE BIOSYNTHESIS
Methyltransferase-Related Protein (Tm1389) From
Thermotoga Maritima Msb8 At 2.35 A Resolution
Length = 260
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 59/139 (42%), Gaps = 13/139 (9%)
Query: 222 AIDTGCGVASWGAYLMSRNILAVSFAPRDTHEAQVQFALERGVPALIGVMASIRLPYPSR 281
+D G G W +L R V P + ++ A E+GV ++ A LP+PS
Sbjct: 58 VLDLGGGTGKWSLFLQERGFEVVLVDP---SKEXLEVAREKGVKNVVEAKAE-DLPFPSG 113
Query: 282 AFDMAHCSRCLIPWGQYADGLYLIEVDRVLRPGGYWILSGPPVNWESHWK------GWNR 335
AF+ ++ + + D + E+ RVL P G +L N+ + + W++
Sbjct: 114 AFEAVLALGDVLSYVENKDKAF-SEIRRVLVPDG--LLIATVDNFYTFLQQXIEKDAWDQ 170
Query: 336 TTEDLKSEQNGIETIARSL 354
T LK++ + T S
Sbjct: 171 ITRFLKTQTTSVGTTLFSF 189
>pdb|1A2N|A Chain A, Structure Of The C115a Mutant Of Mura Complexed With The
Fluorinated Analog Of The Reaction Tetrahedral
Intermediate
Length = 419
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 182 RFQGDRFSFPGGGTMFPRGADAYI---DDIGKLINLKDGSIRTAID 224
RF + S PGG T+ R D +I + +G I L++G ++ ++D
Sbjct: 103 RFGQGQVSLPGGATIGARPVDLHISGLEQLGATIKLEEGYVKASVD 148
>pdb|3SWD|A Chain A, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|B Chain B, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|C Chain C, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|D Chain D, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|E Chain E, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|F Chain F, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|G Chain G, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|H Chain H, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|I Chain I, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|J Chain J, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|K Chain K, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
pdb|3SWD|L Chain L, E. Coli Mura In Complex With Udp-N-Acetylmuramic Acid And
Covalent Adduct Of Pep With Cys115
Length = 418
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 182 RFQGDRFSFPGGGTMFPRGADAYI---DDIGKLINLKDGSIRTAID 224
RF + S PGG T+ R D +I + +G I L++G ++ ++D
Sbjct: 103 RFGQGQVSLPGGXTIGARPVDLHISGLEQLGATIKLEEGYVKASVD 148
>pdb|2Z2C|A Chain A, Mura Inhibited By Unag-Cnicin Adduct
pdb|2Z2C|B Chain B, Mura Inhibited By Unag-Cnicin Adduct
pdb|2Z2C|C Chain C, Mura Inhibited By Unag-Cnicin Adduct
pdb|2Z2C|D Chain D, Mura Inhibited By Unag-Cnicin Adduct
Length = 423
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 182 RFQGDRFSFPGGGTMFPRGADAYI---DDIGKLINLKDGSIRTAID 224
RF + S PGG T+ R D +I + +G I L++G ++ ++D
Sbjct: 103 RFGQGQVSLPGGCTIGARPVDLHISGLEQLGATIKLEEGYVKASVD 148
>pdb|1UAE|A Chain A, Structure Of Udp-N-Acetylglucosamine Enolpyruvyl
Transferase
Length = 419
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 182 RFQGDRFSFPGGGTMFPRGADAYI---DDIGKLINLKDGSIRTAID 224
RF + S PGG T+ R D +I + +G I L++G ++ ++D
Sbjct: 103 RFGQGQVSLPGGCTIGARPVDLHISGLEQLGATIKLEEGYVKASVD 148
>pdb|3KQJ|A Chain A, Mura Binary Complex With Udp-N-Acetylglucosamine
pdb|3KR6|A Chain A, Mura Dead-End Complex With Fosfomycin
Length = 419
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 182 RFQGDRFSFPGGGTMFPRGADAYI---DDIGKLINLKDGSIRTAID 224
RF + S PGG T+ R D +I + +G I L++G ++ ++D
Sbjct: 103 RFGQGQVSLPGGCTIGARPVDLHISGLEQLGATIKLEEGYVKASVD 148
>pdb|3ISS|A Chain A, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|B Chain B, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|C Chain C, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|D Chain D, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|E Chain E, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|F Chain F, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|G Chain G, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|H Chain H, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|I Chain I, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|J Chain J, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|K Chain K, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
pdb|3ISS|L Chain L, Crystal Structure Of Enolpyruvyl-Udp-Glcnac Synthase
(Mura):udp-N- Acetylmuramic Acid:phosphite From
Escherichia Coli
Length = 418
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 182 RFQGDRFSFPGGGTMFPRGADAYI---DDIGKLINLKDGSIRTAID 224
RF + S PGG T+ R D +I + +G I L++G ++ ++D
Sbjct: 103 RFGQGQVSLPGGCTIGARPVDLHISGLEQLGATIKLEEGYVKASVD 148
>pdb|4AGJ|A Chain A, Crystal Structure Of The Capsid Protein (110-267) From
Aura Virus In Complex With Dioxane
Length = 158
Score = 30.4 bits (67), Expect = 3.1, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 179 NW----VRFQGDRFSFPGGGTMFPRGADAYIDDIGKLINLKDGSIRTAIDTGCGVASW 232
NW V+F G RF+ P G +DD GK++ + G T V +W
Sbjct: 84 NWHHGAVQFSGGRFTIPTGAGGPGDSGRPILDDSGKVVAIVLGGANEGARTALSVVTW 141
>pdb|2GS9|A Chain A, Crystal Structure Of Tt1324 From Thermus Thermophilis Hb8
pdb|2GS9|B Chain B, Crystal Structure Of Tt1324 From Thermus Thermophilis Hb8
Length = 211
Score = 29.3 bits (64), Expect = 7.2, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 37/74 (50%), Gaps = 4/74 (5%)
Query: 506 VPVEAKINTLGVIYERGLIGTY-QNWCEAMSTYPRTYDLIHADSIFSLYKDRCEMEDVLL 564
V VE L V R T+ + W EA+ ++D++ + +D +E VLL
Sbjct: 60 VGVEPSEAXLAVGRRRAPEATWVRAWGEALPFPGESFDVVLLFTTLEFVED---VERVLL 116
Query: 565 EMDRILRPEGSVII 578
E R+LRP G++++
Sbjct: 117 EARRVLRPGGALVV 130
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
0.321 0.136 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,961,412
Number of Sequences: 62578
Number of extensions: 921770
Number of successful extensions: 1632
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1630
Number of HSP's gapped (non-prelim): 13
length of query: 637
length of database: 14,973,337
effective HSP length: 105
effective length of query: 532
effective length of database: 8,402,647
effective search space: 4470208204
effective search space used: 4470208204
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: 55 (25.8 bits)