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= 027962
(216 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ZW9|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZW9|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
Length = 695
Score = 38.1 bits (87), Expect = 0.004, Method: Composition-based stats.
Identities = 28/82 (34%), Positives = 37/82 (45%), Gaps = 11/82 (13%)
Query: 36 PPARSGHSLTRIG-GNRTVLFGGRGVGYEVLNDVWFLDVYEGFFKWVQIPYELQNIPAGF 94
P AR H+ T I N+ +L GGR ++ L+D W D+ +W I
Sbjct: 437 PVARMCHTFTTISRNNQLLLIGGRKAPHQGLSDNWIFDMKTR--EWSMI--------KSL 486
Query: 95 SLPRVGHSATLILGGRVLIYGG 116
S R HSA + G VLI GG
Sbjct: 487 SHTRFRHSACSLPDGNVLILGG 508
>pdb|1JN1|A Chain A, Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate
Synthase From Haemophilus Influenzae (Hi0671)
pdb|1JN1|B Chain B, Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate
Synthase From Haemophilus Influenzae (Hi0671)
pdb|1JN1|C Chain C, Structure Of 2c-Methyl-D-Erythritol 2,4-Cyclodiphosphate
Synthase From Haemophilus Influenzae (Hi0671)
Length = 158
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 133 KAIPFTSVQQSMLDSRGLLLNMWKRLRAEGYK 164
K P T +Q DSRGLL +++++ +GYK
Sbjct: 60 KLFPDTDMQYKNADSRGLLREAFRQVQEKGYK 91
>pdb|1VH8|A Chain A, Crystal Structure Of A 2c-methyl-d-erythritol
2,4-cyclodiphosphate Synthase
pdb|1VH8|B Chain B, Crystal Structure Of A 2c-methyl-d-erythritol
2,4-cyclodiphosphate Synthase
pdb|1VH8|C Chain C, Crystal Structure Of A 2c-methyl-d-erythritol
2,4-cyclodiphosphate Synthase
pdb|1VH8|D Chain D, Crystal Structure Of A 2c-methyl-d-erythritol
2,4-cyclodiphosphate Synthase
pdb|1VH8|E Chain E, Crystal Structure Of A 2c-methyl-d-erythritol
2,4-cyclodiphosphate Synthase
pdb|1VH8|F Chain F, Crystal Structure Of A 2c-methyl-d-erythritol
2,4-cyclodiphosphate Synthase
pdb|1VHA|A Chain A, Crystal Structure Of 2c-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase
pdb|1VHA|B Chain B, Crystal Structure Of 2c-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase
pdb|1VHA|C Chain C, Crystal Structure Of 2c-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase
pdb|1VHA|D Chain D, Crystal Structure Of 2c-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase
pdb|1VHA|E Chain E, Crystal Structure Of 2c-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase
pdb|1VHA|F Chain F, Crystal Structure Of 2c-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase
Length = 170
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 133 KAIPFTSVQQSMLDSRGLLLNMWKRLRAEGYK 164
K P T Q DSRGLL +++++ +GYK
Sbjct: 62 KLFPDTDXQYKNADSRGLLREAFRQVQEKGYK 93
>pdb|3F6M|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-
Cyclodiphosphate Synthase Ispf From Yersinia Pestis
pdb|3FPI|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 2,4-
Cyclodiphosphate Synthase Ispf Complexed With Cytidine
Triphosphate
Length = 165
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 133 KAIPFTSVQQSMLDSRGLLLNMWKRLRAEGYK 164
K P T DSRGLL ++R+ A+GYK
Sbjct: 64 KLFPDTDPAFKGADSRGLLREAYRRILAKGYK 95
>pdb|1KNJ|A Chain A, Co-Crystal Structure Of 2-C-Methyl-D-Erythritol
2,4-Cyclodiphosphate Synthase (Ispf) From E. Coli
Involved In Mevalonate-Independent Isoprenoid
Biosynthesis, Complexed With CmpMECDPMN2+
Length = 159
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 133 KAIPFTSVQQSMLDSRGLLLNMWKRLRAEGY 163
K P T DSR LL W+R++A+GY
Sbjct: 59 KLFPDTDPAFKGADSRELLREAWRRIQAKGY 89
>pdb|1GX1|A Chain A, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate
Synthase
pdb|1GX1|B Chain B, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate
Synthase
pdb|1GX1|C Chain C, Structure Of 2c-Methyl-D-Erythritol-2,4-Cyclodiphosphate
Synthase
Length = 160
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 133 KAIPFTSVQQSMLDSRGLLLNMWKRLRAEGY 163
K P T DSR LL W+R++A+GY
Sbjct: 60 KLFPDTDPAFKGADSRELLREAWRRIQAKGY 90
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
0.325 0.144 0.473
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,063,004
Number of Sequences: 62578
Number of extensions: 298177
Number of successful extensions: 746
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 732
Number of HSP's gapped (non-prelim): 17
length of query: 216
length of database: 14,973,337
effective HSP length: 95
effective length of query: 121
effective length of database: 9,028,427
effective search space: 1092439667
effective search space used: 1092439667
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 49 (23.5 bits)