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= 028043
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XQ6|A Chain A, X-ray Structure Of Gene Product From Arabidopsis Thaliana
At5g02240
pdb|1XQ6|B Chain B, X-ray Structure Of Gene Product From Arabidopsis Thaliana
At5g02240
pdb|1YBM|A Chain A, X-Ray Structure Of Selenomethionyl Gene Product From
Arabidopsis Thaliana At5g02240 In Space Group P21212
pdb|1YBM|B Chain B, X-Ray Structure Of Selenomethionyl Gene Product From
Arabidopsis Thaliana At5g02240 In Space Group P21212
pdb|2Q46|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g02240
pdb|2Q46|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g02240
pdb|2Q4B|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Selenomethionyl Gene Product From Arabidopsis Thaliana
At5g02240 In Space Group P21212
pdb|2Q4B|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Selenomethionyl Gene Product From Arabidopsis Thaliana
At5g02240 In Space Group P21212
Length = 253
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 53/113 (46%), Gaps = 23/113 (20%)
Query: 109 SRLLLRDPEKATTLFGKQDEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGTTAFPSRR 168
++ L+R + + G+ D V GD + ++PA F+G+ ++ T +A P +
Sbjct: 33 AKGLVRSAQGKEKIGGEAD-----VFIGDITDADSINPA-FQGIDALVILT--SAVPKMK 84
Query: 169 --------------WDGDNTPEKVDWEGVRNLVSALP-SSLKRIVLVSSVGVT 206
++ PE+VDW G +N + A + +K IV+V S+G T
Sbjct: 85 PGFDPTKGGRPEFIFEDGQYPEQVDWIGQKNQIDAAKVAGVKHIVVVGSMGGT 137
>pdb|4IJB|A Chain A, Crystal Structure Of Engineered Protein, Northeast
Structural Genomics Consortium Target Or288
Length = 256
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 26/43 (60%), Gaps = 3/43 (6%)
Query: 169 WDGDNTPEKVDWEGVRNLVSALPSSLKRIVLVSSVGVTKFNEL 211
W DN +++ E R L+S +PS+ +V V+ G+++ NE+
Sbjct: 180 WSQDNETLEINKENQRKLISXIPSN---VVKVAGGGISERNEI 219
>pdb|2W8B|A Chain A, Crystal Structure Of Processed Tolb In Complex With Pal
Length = 409
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 173 NTPEKVDWEGVRNLVSALPSSLKRIVLVSSVG 204
P+++ WEG +N + + S K +V+VSS G
Sbjct: 301 GAPQRITWEGSQNQDADVSSDGKFMVMVSSNG 332
>pdb|2W8B|B Chain B, Crystal Structure Of Processed Tolb In Complex With Pal
pdb|2W8B|D Chain D, Crystal Structure Of Processed Tolb In Complex With Pal
pdb|2W8B|F Chain F, Crystal Structure Of Processed Tolb In Complex With Pal
Length = 409
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 173 NTPEKVDWEGVRNLVSALPSSLKRIVLVSSVG 204
P+++ WEG +N + + S K +V+VSS G
Sbjct: 301 GAPQRITWEGSQNQDADVSSDGKFMVMVSSNG 332
>pdb|2HQS|A Chain A, Crystal Structure Of TolbPAL COMPLEX
pdb|2HQS|B Chain B, Crystal Structure Of TolbPAL COMPLEX
pdb|2HQS|D Chain D, Crystal Structure Of TolbPAL COMPLEX
pdb|2HQS|F Chain F, Crystal Structure Of TolbPAL COMPLEX
Length = 415
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 173 NTPEKVDWEGVRNLVSALPSSLKRIVLVSSVG 204
P+++ WEG +N + + S K +V+VSS G
Sbjct: 301 GAPQRITWEGSQNQDADVSSDGKFMVMVSSNG 332
>pdb|3IAX|A Chain A, The Crystal Structure Of The Tolb Box Of Colicin A In
Complex With Tolb Reveals Important Differences In The
Recruitment Of The Common Tolb Translocation Portal Used
By Group A Colicins
Length = 438
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 173 NTPEKVDWEGVRNLVSALPSSLKRIVLVSSVG 204
P+++ WEG +N + + S K +V+VSS G
Sbjct: 322 GAPQRITWEGSQNQDADVSSDGKFMVMVSSNG 353
>pdb|1C5K|A Chain A, The Structure Of Tolb, An Essential Component Of The Tol-
Dependent Translocation System And Its Interactions With
The Translocation Domain Of Colicin E9
pdb|2IVZ|A Chain A, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
pdb|2IVZ|B Chain B, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
pdb|2IVZ|C Chain C, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
pdb|2IVZ|D Chain D, Structure Of Tolb In Complex With A Peptide Of The Colicin
E9 T-Domain
Length = 439
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 173 NTPEKVDWEGVRNLVSALPSSLKRIVLVSSVG 204
P+++ WEG +N + + S K +V+VSS G
Sbjct: 323 GAPQRITWEGSQNQDADVSSDGKFMVMVSSNG 354
>pdb|1Y64|B Chain B, Bni1p Formin Homology 2 Domain Complexed With Atp-actin
Length = 443
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 174 TPEKVDWEGVRNLVSALP 191
P DWEGVRNL A P
Sbjct: 156 APYSTDWEGVRNLEDAKP 173
>pdb|1UX5|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Flexibly Tethered Dimer Architecture
Length = 411
Score = 27.3 bits (59), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 174 TPEKVDWEGVRNLVSALP 191
P DWEGVRNL A P
Sbjct: 133 APYSTDWEGVRNLEDAKP 150
>pdb|1UX4|A Chain A, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
pdb|1UX4|B Chain B, Crystal Structures Of A Formin Homology-2 Domain Reveal A
Tethered-Dimer Architecture
Length = 410
Score = 27.3 bits (59), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 174 TPEKVDWEGVRNLVSALP 191
P DWEGVRNL A P
Sbjct: 127 APYSTDWEGVRNLEDAKP 144
>pdb|2RH8|A Chain A, Structure Of Apo Anthocyanidin Reductase From Vitis
Vinifera
pdb|3HFS|A Chain A, Structure Of Apo Anthocyanidin Reductase From Vitis
Vinifera
pdb|3HFS|B Chain B, Structure Of Apo Anthocyanidin Reductase From Vitis
Vinifera
Length = 338
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 45/104 (43%), Gaps = 8/104 (7%)
Query: 113 LRDPE---KATTLFGKQDEETLQVCKGDTRNPKDLDPAIFEGVTHVICCTGTTAFPSRRW 169
+RDP+ K + L Q+ L++ + D + + I G V F S
Sbjct: 40 VRDPDNQKKVSHLLELQELGDLKIFRADLTDELSFEAPI-AGCDFVFHVATPVHFASE-- 96
Query: 170 DGDNTPEKVDWEGVRNLVSAL--PSSLKRIVLVSSVGVTKFNEL 211
D +N K +GV N++ A S+KR++L SS N+L
Sbjct: 97 DPENDMIKPAIQGVVNVMKACTRAKSVKRVILTSSAAAVTINQL 140
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
0.317 0.132 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,355,471
Number of Sequences: 62578
Number of extensions: 183506
Number of successful extensions: 320
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 312
Number of HSP's gapped (non-prelim): 11
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 49 (23.5 bits)