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= psy3603
(264 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1O7I|A Chain A, Crystal Structure Of A Single Stranded Dna Binding Protein
pdb|1O7I|B Chain B, Crystal Structure Of A Single Stranded Dna Binding Protein
Length = 119
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 54/122 (44%), Gaps = 9/122 (7%)
Query: 31 MDVYIKDLHVGIKNVNVTCIVLDISPRVTLKENREVRTLK---VADSTACINLSLWDEPG 87
M+ + +L +++VNVT VL+ S ++ VRT+ V D T + L+LW +
Sbjct: 1 MEEKVGNLKPNMESVNVTVRVLEASEARQIQTKNGVRTISEAIVGDETGRVKLTLWGKHA 60
Query: 88 ALLHPGDIVRLTKCYAQIWRNCLTLYSSKSGLIEKIGEFCMVFNENLDMSIPIPNLPVNA 147
+ G +V++ + ++ + L +G KI E + S IP A
Sbjct: 61 GSIKEGQVVKIENAWTTAFKGQVQL---NAGSKTKIAEAS---EDGFPESSQIPENTPTA 114
Query: 148 PQ 149
PQ
Sbjct: 115 PQ 116
>pdb|1WJJ|A Chain A, Solution Structure Of Hypothetical Protein F20o9.120 From
Arabidopsis Thaliana
Length = 145
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 30/68 (44%)
Query: 71 VADSTACINLSLWDEPGALLHPGDIVRLTKCYAQIWRNCLTLYSSKSGLIEKIGEFCMVF 130
+ D T CI + ++ L+ PG V L +++ + L K G IE G
Sbjct: 68 IGDETGCILFTARNDQVDLMKPGATVILRNSRIDMFKGTMRLGVDKWGRIEATGAASFTV 127
Query: 131 NENLDMSI 138
E+ ++S+
Sbjct: 128 KEDNNLSL 135
>pdb|2DDX|A Chain A, Crystal Structure Of Beta-1,3-Xylanase From Vibrio Sp.
Ax-4
Length = 333
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 182 YSNNPDKGSSSSTQNTWVTWDQLLPVKFQFFSSSSRTLK 220
YS +P KG++ ++ + WD+ FQF S +S +K
Sbjct: 225 YSADPAKGTNRQSKTSQQLWDEWFAPYFQFMSDNSDIVK 263
>pdb|1YQF|A Chain A, Hypothetical Protein From Leishmania Major Unknown
Function Sequence Homologue To Human P32 Protein
pdb|1YQF|B Chain B, Hypothetical Protein From Leishmania Major Unknown
Function Sequence Homologue To Human P32 Protein
pdb|1YQF|C Chain C, Hypothetical Protein From Leishmania Major Unknown
Function Sequence Homologue To Human P32 Protein
pdb|1YQF|D Chain D, Hypothetical Protein From Leishmania Major Unknown
Function Sequence Homologue To Human P32 Protein
pdb|1YQF|E Chain E, Hypothetical Protein From Leishmania Major Unknown
Function Sequence Homologue To Human P32 Protein
pdb|1YQF|F Chain F, Hypothetical Protein From Leishmania Major Unknown
Function Sequence Homologue To Human P32 Protein
Length = 203
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 108 NCLTLYSSKSGLIEKIGEFCMVFN 131
NC+ Y K G+ EK+GEF ++++
Sbjct: 160 NCVMTYLEKRGVDEKLGEFVVLYS 183
>pdb|3EC1|A Chain A, Structure Of Yqeh Gtpase From Geobacillus
Stearothermophilus (An Atnos1 ATNOA1 ORTHOLOG)
pdb|3EC1|B Chain B, Structure Of Yqeh Gtpase From Geobacillus
Stearothermophilus (An Atnos1 ATNOA1 ORTHOLOG)
Length = 369
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 35/85 (41%), Gaps = 10/85 (11%)
Query: 13 KNHGMRAERKEINRKKEAMDVYIKDLHVGIKNVNVTCIVLDISPRVTLKENREVRTLKVA 72
K GM + INR +E DVY+ VG NV + + I T K N +
Sbjct: 145 KGIGMAKVMEAINRYREGGDVYV----VGCTNVGKSTFINRIIEEATGKGNVITTSYFPG 200
Query: 73 DSTACINL------SLWDEPGALLH 91
+ I + +L+D PG + H
Sbjct: 201 TTLDMIEIPLESGATLYDTPGIINH 225
>pdb|3BUU|A Chain A, Crystal Structure Of Lola Superfamily Protein Ne2245 From
Nitrosomonas Europaea
pdb|3BUU|B Chain B, Crystal Structure Of Lola Superfamily Protein Ne2245 From
Nitrosomonas Europaea
Length = 229
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 198 WVTWDQLLPVKFQFFSSSSRTLKFSNFE 225
WV P K +F+S S R LK S +E
Sbjct: 150 WVNQSNFRPYKAEFYSVSGRLLKTSRYE 177
>pdb|3BK5|A Chain A, Crystal Structure Of Putative Outer Membrane
Lipoprotein-Sorting Protein Domain From Vibrio
Parahaemolyticus
Length = 237
Score = 27.3 bits (59), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 187 DKGSSSSTQNTWVTWDQLLPVKFQFFSSSS---RTLKFSNFECGVYLDMCLRRRT 238
DK S + Q W+ P+K +F+ +TL F+N++ YLD R T
Sbjct: 148 DKNSGYTKQVVWLDKAHYRPLKVEFYDRKGALLKTLTFANYKQ--YLDKYWRAHT 200
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 0.134 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,484,324
Number of Sequences: 62578
Number of extensions: 266355
Number of successful extensions: 632
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 627
Number of HSP's gapped (non-prelim): 7
length of query: 264
length of database: 14,973,337
effective HSP length: 97
effective length of query: 167
effective length of database: 8,903,271
effective search space: 1486846257
effective search space used: 1486846257
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)