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= psy2248
(102 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HG6|B Chain B, Structure Of A Cellulose Synthase - Cellulose
Translocation Intermediate
Length = 707
Score = 26.6 bits (57), Expect = 3.6, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 29/53 (54%)
Query: 1 VGPSRLSQSQQNENAEQITLLSEKINNLVSEAERVGMEGSVEKAQGLMKLCDQ 53
VGP Q QQ A ++ L +E + ++ A+R ++ E +Q ++++ DQ
Sbjct: 50 VGPLFRLQGQQARAAFRLFLPTEAVGGTLTLAQRSSIDILPESSQIIVRMNDQ 102
>pdb|2WMH|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
In Complex With The H-Disaccharide Blood Group Antigen
Length = 581
Score = 26.2 bits (56), Expect = 5.7, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 65 NDNNHWSQTVELAAAQEKQMEVCTVCGAFLIVGDAQ 100
N N+W +LA K +EVC GA I D +
Sbjct: 148 NIENYWIYNNQLAPHSAKYLEVCAKYGAHFIWHDHE 183
>pdb|2WMF|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Its Native Form
Length = 581
Score = 26.2 bits (56), Expect = 5.7, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 65 NDNNHWSQTVELAAAQEKQMEVCTVCGAFLIVGDAQ 100
N N+W +LA K +EVC GA I D +
Sbjct: 148 NIENYWIYNNQLAPHSAKYLEVCAKYGAHFIWHDHE 183
>pdb|2A0I|A Chain A, F Factor Trai Relaxase Domain Bound To F Orit
Single-Stranded Dna
Length = 330
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 31/61 (50%)
Query: 32 AERVGMEGSVEKAQGLMKLCDQLKEEREMLRKQNDNNHWSQTVELAAAQEKQMEVCTVCG 91
AE++G++GSV+K L +L + ++ R Q+ +N +L + K + + + G
Sbjct: 38 AEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQDGSNRHRPGYDLTFSAPKSVSMMAMLG 97
Query: 92 A 92
Sbjct: 98 G 98
>pdb|1P4D|A Chain A, F Factor Trai Relaxase Domain
pdb|1P4D|B Chain B, F Factor Trai Relaxase Domain
pdb|1P4D|C Chain C, F Factor Trai Relaxase Domain
Length = 330
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 31/61 (50%)
Query: 32 AERVGMEGSVEKAQGLMKLCDQLKEEREMLRKQNDNNHWSQTVELAAAQEKQMEVCTVCG 91
AE++G++GSV+K L +L + ++ R Q+ +N +L + K + + + G
Sbjct: 38 AEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQDGSNRHRPGYDLTFSAPKSVSMMAMLG 97
Query: 92 A 92
Sbjct: 98 G 98
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 3/49 (6%)
Query: 21 LSEKINNLVSEAE---RVGMEGSVEKAQGLMKLCDQLKEEREMLRKQND 66
L +K +L+ EA R+ +E + E+ L + QL+ ERE L+K+ D
Sbjct: 377 LPDKAIDLIDEAAARLRMALESAPEEIDALERKKLQLEIEREALKKEKD 425
>pdb|2WMG|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Complex With The Lewisy Pentasaccharide
Blood Group Antigen
Length = 581
Score = 25.4 bits (54), Expect = 7.8, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 65 NDNNHWSQTVELAAAQEKQMEVCTVCGAFLIVGDAQ 100
N N+W +LA K +EVC GA I D +
Sbjct: 148 NIANYWIYNNQLAPHSAKYLEVCAKYGAHFIWHDHE 183
>pdb|3RPM|A Chain A, Crystal Structure Of The First Gh20 Domain Of A Novel
Beta-N-Acetyl- Hexosaminidase Strh From Streptococcus
Pneumoniae R6
pdb|3RPM|B Chain B, Crystal Structure Of The First Gh20 Domain Of A Novel
Beta-N-Acetyl- Hexosaminidase Strh From Streptococcus
Pneumoniae R6
Length = 467
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 4 SRLSQSQQNENAEQITLLSEKINNLVSEAERVGMEGSVEKAQGLMK 49
S LS++QQ+ + I L E +NNL E E + + + L K
Sbjct: 411 SNLSRAQQDTIDQAIAKLQETVNNLTLTPEAQKEEEAKREVEKLAK 456
>pdb|2Q7T|A Chain A, Crystal Structure Of The F Plasmid Trai Relaxase Domain
With The Scissile Thymidine Base
pdb|2Q7T|B Chain B, Crystal Structure Of The F Plasmid Trai Relaxase Domain
With The Scissile Thymidine Base
pdb|2Q7U|A Chain A, Crystal Structure Of The F Plasmid Trai Relaxase Domain
With The Scissile Thymidine Base And Imidodiphosphate
pdb|2Q7U|B Chain B, Crystal Structure Of The F Plasmid Trai Relaxase Domain
With The Scissile Thymidine Base And Imidodiphosphate
Length = 301
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 31/61 (50%)
Query: 32 AERVGMEGSVEKAQGLMKLCDQLKEEREMLRKQNDNNHWSQTVELAAAQEKQMEVCTVCG 91
AE++G++GSV+K L +L + ++ R Q+ +N +L + K + + + G
Sbjct: 38 AEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQDGSNRHRPGYDLTFSAPKSVSMMAMLG 97
Query: 92 A 92
Sbjct: 98 G 98
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
0.309 0.124 0.332
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,431,924
Number of Sequences: 62578
Number of extensions: 73389
Number of successful extensions: 327
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 316
Number of HSP's gapped (non-prelim): 21
length of query: 102
length of database: 14,973,337
effective HSP length: 67
effective length of query: 35
effective length of database: 10,780,611
effective search space: 377321385
effective search space used: 377321385
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)