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= psy10678
(136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECE|A Chain A, X-Ray Structure Of Hypothetical Selenium-Binding Protein
From Sulfolobus Tokodaii, St0059
Length = 462
Score = 59.7 bits (143), Expect = 6e-10, Method: Composition-based stats.
Identities = 29/67 (43%), Positives = 41/67 (61%)
Query: 50 IDVDPQSKTYQQVRNTLRAGLAMVTDILISLDDRYLYTSNWMHGDIRQYDIRDTAHPVLV 109
I +P ++ +A +VTDI ISLDD++LY S W G++RQYDI + PVL
Sbjct: 300 IPAEPLEGNLPEILKPFKAVPPLVTDIDISLDDKFLYLSLWGIGEVRQYDISNPFKPVLT 359
Query: 110 GQIFLGG 116
G++ LGG
Sbjct: 360 GKVKLGG 366
Score = 37.4 bits (85), Expect = 0.002, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 30/49 (61%), Gaps = 3/49 (6%)
Query: 16 YRTPVDAMRYGPRETLLYVICIQPNG--QHPDYLAVIDVDPQSKTYQQV 62
Y +P AM+ P E L YV C+ D++AV+DV+P+S+TY ++
Sbjct: 13 YPSPKMAMK-APPEDLAYVACLYTGTGINRADFIAVVDVNPKSETYSKI 60
>pdb|3KYF|A Chain A, Crystal Structure Of P4397 Complexed With C-Di-Gmp
Length = 231
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%)
Query: 54 PQSKTYQQVRNTLRAGLAMVTDILISLDDRYLYTSNWMHGDI 95
PQ TY Q RN RA L + + I LD +L + M G +
Sbjct: 107 PQEVTYHQRRNAFRAALKLSQLVDIILDGAHLKGNGAMRGKL 148
>pdb|2GJG|A Chain A, Crystal Structure Of A Pilz-Containing Protein (Pp4397)
From Pseudomonas Putida Kt2440 At 2.25 A Resolution
Length = 248
Score = 29.3 bits (64), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%)
Query: 54 PQSKTYQQVRNTLRAGLAMVTDILISLDDRYLYTSNWMHGDI 95
PQ TY Q RN RA L + + I LD +L + G +
Sbjct: 115 PQEVTYHQRRNAFRAALKLSQLVDIILDGAHLKGNGAXRGKL 156
>pdb|3A21|A Chain A, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A21|B Chain B, Crystal Structure Of Streptomyces Avermitilis Beta-L-
Arabinopyranosidase
pdb|3A22|A Chain A, Crystal Structure Of Beta-L-Arabinopyranosidase Complexed
With L- Arabinose
pdb|3A22|B Chain B, Crystal Structure Of Beta-L-Arabinopyranosidase Complexed
With L- Arabinose
pdb|3A23|A Chain A, Crystal Structure Of Beta-l-arabinopyranosidase Complexed
With D- Galactose
pdb|3A23|B Chain B, Crystal Structure Of Beta-l-arabinopyranosidase Complexed
With D- Galactose
Length = 614
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 4 NPTSCCSGKGPGYRTPVDAMRYGPRETLLYVIC-----IQPNGQHPDY 46
NP + +G+ P +RT D + YG + ++ ++ + P QH Y
Sbjct: 186 NPWNWAAGQAPLWRTSTDIIYYGNQPSMTSLLSNFDQTLHPTAQHTGY 233
>pdb|2FGS|A Chain A, Crystal Structure Of Campylobacter Jejuni Ycei Protein,
Structural Genomics
Length = 179
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 41 GQHPDYLAVIDVDPQSKTYQQVRNTLR 67
G DY AVID DP S ++++ T++
Sbjct: 26 GNFKDYSAVIDFDPASAEFKKLDVTIK 52
>pdb|1K7H|A Chain A, Crystal Structure Of Shrimp Alkaline Phosphatase
pdb|1K7H|B Chain B, Crystal Structure Of Shrimp Alkaline Phosphatase
Length = 476
Score = 26.6 bits (57), Expect = 5.0, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 17/41 (41%)
Query: 11 GKGPGYRTPVDAMRYGPRETLLYVICIQPNGQHPDYLAVID 51
G GPGY D RY P E L I + P + A D
Sbjct: 393 GSGPGYHITEDGKRYEPTEEDLKDINFRYASAAPKHSATHD 433
>pdb|1V7L|A Chain A, Structure Of 3-Isopropylmalate Isomerase Small Subunit
From Pyrococcus Horikoshii
pdb|1V7L|B Chain B, Structure Of 3-Isopropylmalate Isomerase Small Subunit
From Pyrococcus Horikoshii
Length = 163
Score = 26.2 bits (56), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 24/53 (45%)
Query: 47 LAVIDVDPQSKTYQQVRNTLRAGLAMVTDILISLDDRYLYTSNWMHGDIRQYD 99
L + V +S RN + G+ ++ L D L T NW G++R+ D
Sbjct: 77 LGIAGVIAESFGRIFYRNAINIGIPLLLGKTEGLKDGDLVTVNWETGEVRKGD 129
>pdb|2WW8|A Chain A, Structure Of The Pilus Adhesin (Rrga) From Streptococcus
Pneumoniae
Length = 893
Score = 25.8 bits (55), Expect = 6.9, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 42 QHPDYLAVIDVDPQSKTYQQVR 63
QHPDY + Q+ TYQ VR
Sbjct: 761 QHPDYPDIYGAIDQNGTYQNVR 782
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 0.139 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,646,413
Number of Sequences: 62578
Number of extensions: 180377
Number of successful extensions: 365
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 356
Number of HSP's gapped (non-prelim): 10
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
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: 46 (22.3 bits)