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= psy18023
(151 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YLL|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 454
Score = 33.5 bits (75), Expect = 0.046, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 36/64 (56%)
Query: 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKE 123
+ ++ L+++ K+L++ E +KE+ + I+ L+ + + Q+ +DQ +L + V
Sbjct: 390 ESAEQALNEVPKDLNRYTAESVTAVKEAEKAIRSLDSNLSRAQQDTIDQAIAKLQETVNN 449
Query: 124 LDLT 127
L LT
Sbjct: 450 LTLT 453
>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 = 32.7 bits (73), Expect = 0.084, Method: Composition-based stats.
Identities = 16/64 (25%), Positives = 36/64 (56%)
Query: 64 DQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKE 123
+ ++ L+++ K+L++ E +KE+ + I+ L+ + + Q+ +DQ +L + V
Sbjct: 375 ESAEQALNEVPKDLNRYTAESVAAVKEAEKAIRSLDSNLSRAQQDTIDQAIAKLQETVNN 434
Query: 124 LDLT 127
L LT
Sbjct: 435 LTLT 438
>pdb|2YL6|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 434
Score = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 34/60 (56%)
Query: 68 KELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLT 127
+ L+++ K+L++ E +KE+ + I+ L+ + + Q+ +DQ +L + V L LT
Sbjct: 374 QALNEVPKDLNRYTAESVTAVKEAEKAIRSLDSNLSRAQQDTIDQAIAKLQETVNNLTLT 433
>pdb|2YL8|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 434
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 34/60 (56%)
Query: 68 KELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLT 127
+ L+++ K+L++ E +KE+ + I+ L+ + + Q+ +DQ +L + V L LT
Sbjct: 374 QALNEVPKDLNRYTAESVTAVKEAEKAIRSLDSNLSRAQQDTIDQAIAKLQETVNNLTLT 433
>pdb|1YW1|A Chain A, Structure Of Ytnj From Bacillus Subtilis In Complex With
Fmn
Length = 442
Score = 29.3 bits (64), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 54/113 (47%), Gaps = 24/113 (21%)
Query: 21 RMFDGLTPVTDGSTEESEINLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQI 80
R+F G++P+ + E+E EK+ + +F +L I+ + + + D
Sbjct: 266 RIFPGISPIVADT---------------EEEAEKKYR-EFAELIPIENAVTYLARFFD-- 307
Query: 81 IKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQ 133
+ DL + ++ ++ + K + Q+ D+IK+E K +LT++E+ Q
Sbjct: 308 --DYDLSVYPLDEPFPDIGDVGKNAFQSTTDRIKRE----AKARNLTLREVAQ 354
>pdb|1JR1|A Chain A, Crystal Structure Of Inosine Monophosphate Dehydrogenase
In Complex With Mycophenolic Acid
pdb|1JR1|B Chain B, Crystal Structure Of Inosine Monophosphate Dehydrogenase
In Complex With Mycophenolic Acid
Length = 514
Score = 28.1 bits (61), Expect = 2.1, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 37/64 (57%), Gaps = 7/64 (10%)
Query: 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKEL 117
+DF K ++E D+ ++E+ + K DL++ + +KE N I++ S + KL I E
Sbjct: 163 IDFLK----EEEHDRFLEEI--MTKREDLVVAPAGITLKEANEILQRSKKGKL-PIVNEN 215
Query: 118 DQMV 121
D++V
Sbjct: 216 DELV 219
>pdb|1FGJ|A Chain A, X-Ray Structure Of Hydroxylamine Oxidoreductase
pdb|1FGJ|B Chain B, X-Ray Structure Of Hydroxylamine Oxidoreductase
Length = 546
Score = 28.1 bits (61), Expect = 2.2, Method: Composition-based stats.
Identities = 17/39 (43%), Positives = 20/39 (51%), Gaps = 5/39 (12%)
Query: 32 GSTEESEINLESSNGIEEQEMEKE-----CKVDFNKLDQ 65
G EE E NL S + E+E KE C VD NK D+
Sbjct: 119 GKLEEVENNLRSMGKLGEKETLKEVGCIDCHVDVNKKDK 157
>pdb|3UFX|B Chain B, Thermus Aquaticus Succinyl-coa Synthetase In Complex With
Gdp-mn2+
pdb|3UFX|E Chain E, Thermus Aquaticus Succinyl-coa Synthetase In Complex With
Gdp-mn2+
pdb|3UFX|G Chain G, Thermus Aquaticus Succinyl-coa Synthetase In Complex With
Gdp-mn2+
pdb|3UFX|I Chain I, Thermus Aquaticus Succinyl-coa Synthetase In Complex With
Gdp-mn2+
Length = 397
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 90 ESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQII 135
E+ +++K L E N NKL Q+ L + + +D +I E+N ++
Sbjct: 151 EAREMVKRAGL---EGNLNKLAQVLVALYRAYEGVDASIAEINPLV 193
>pdb|2BO5|A Chain A, Bovine Oligomycin Sensitivity Conferral Protein N-Terminal
Domain
pdb|2JMX|A Chain A, Oscp-Nt (1-120) In Complex With N-Terminal (1-25) Alpha
Subunit From F1-Atpase
pdb|4B2Q|W Chain W, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|WW Chain w, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 120
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 100 LIIKESNQNKLDQIKKEL---DQMVKELDLTIKELNQIIK 136
L S QNKL+Q++KEL Q++KE + LN +K
Sbjct: 22 LYSAASKQNKLEQVEKELLRVGQILKEPKMAASLLNPYVK 61
>pdb|1TVL|A Chain A, Structure Of Ytnj From Bacillus Subtilis
Length = 454
Score = 27.3 bits (59), Expect = 3.7, Method: Composition-based stats.
Identities = 24/113 (21%), Positives = 51/113 (45%), Gaps = 24/113 (21%)
Query: 21 RMFDGLTPVTDGSTEESEINLESSNGIEEQEMEKECKVDFNKLDQIKKELDQIIKELDQI 80
R+F G++P+ + EE+E +F +L I+ + + + D
Sbjct: 268 RIFPGISPIVADTEEEAEKKYR----------------EFAELIPIENAVTYLARFFD-- 309
Query: 81 IKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVKELDLTIKELNQ 133
+ DL + ++ ++ + K + Q+ D+IK+E K +LT++E+ Q
Sbjct: 310 --DYDLSVYPLDEPFPDIGDVGKNAFQSTTDRIKRE----AKARNLTLREVAQ 356
>pdb|3G7C|A Chain A, Structure Of The Phosphorylation Mimetic Of Occludin
C-Term Tail
Length = 113
Score = 26.6 bits (57), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 6/57 (10%)
Query: 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVK 122
++ ELD+I KEL ++ KELD +ES + + + N+L Q+K + D K
Sbjct: 37 LQSELDEINKELSRLDKELDDYREESEEYMAAADEY------NRLKQVKGDADYKSK 87
>pdb|2PL2|A Chain A, Crystal Structure Of Ttc0263: A Thermophilic Tpr Protein
In Thermus Thermophilus Hb27
pdb|2PL2|B Chain B, Crystal Structure Of Ttc0263: A Thermophilic Tpr Protein
In Thermus Thermophilus Hb27
Length = 217
Score = 26.6 bits (57), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 17 FALFRMFDGLTPVTDGSTEESEINLESSNGIEE----QEMEKECKVDFNKLDQIKKELDQ 72
+A + GL G +++E +L+ + +E+ + E + +LD+ L Q
Sbjct: 117 YAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALAELYLSMGRLDEA---LAQ 173
Query: 73 IIKELDQIIKELDLIIKESNQVI 95
K L+Q K+LDL ++ ++ ++
Sbjct: 174 YAKALEQAPKDLDLRVRYASALL 196
>pdb|1B3O|A Chain A, Ternary Complex Of Human Type-Ii Inosine Monophosphate
Dehydrogenase With 6-Cl-Imp And Selenazole Adenine
Dinucleotide
pdb|1B3O|B Chain B, Ternary Complex Of Human Type-Ii Inosine Monophosphate
Dehydrogenase With 6-Cl-Imp And Selenazole Adenine
Dinucleotide
pdb|1NF7|A Chain A, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With Ribavirin Monophosphate And C2-
Mycophenolic Adenine Dinucleotide
pdb|1NF7|B Chain B, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With Ribavirin Monophosphate And C2-
Mycophenolic Adenine Dinucleotide
pdb|1NFB|A Chain A, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With 6cl-Imp And Nad
pdb|1NFB|B Chain B, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With 6cl-Imp And Nad
Length = 514
Score = 26.2 bits (56), Expect = 6.7, Method: Composition-based stats.
Identities = 20/64 (31%), Positives = 36/64 (56%), Gaps = 7/64 (10%)
Query: 58 VDFNKLDQIKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKEL 117
+DF K ++E D ++E+ + K DL++ + +KE N I++ S + KL I E
Sbjct: 163 IDFLK----EEEHDCFLEEI--MTKREDLVVAPAGITLKEANEILQRSKKGKL-PIVNED 215
Query: 118 DQMV 121
D++V
Sbjct: 216 DELV 219
>pdb|1HA0|A Chain A, Hemagglutinin Precursor Ha0
Length = 494
Score = 26.2 bits (56), Expect = 6.8, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 34/51 (66%), Gaps = 6/51 (11%)
Query: 104 ESNQNKLDQIKKELDQMVKELDLTIKELNQIIKELNQI---IKELNQIVEE 151
+S Q +DQI +L++++++ T ++ +QI KE +++ I++L + VE+
Sbjct: 360 KSTQAAIDQINGKLNRVIEK---TNEKFHQIEKEFSEVEGRIQDLEKYVED 407
>pdb|1WPA|A Chain A, 1.5 Angstrom Crystal Structure Of Human Occludin Fragment
413-522
Length = 114
Score = 26.2 bits (56), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 66 IKKELDQIIKELDQIIKELDLIIKESNQVIKELNLIIKESNQNKLDQIKKELDQMVK 122
++ ELD+I KEL ++ KELD +ES + + + N+L Q+K D K
Sbjct: 38 LQSELDEINKELSRLDKELDDYREESEEYMAAADEY------NRLKQVKGSADYKSK 88
>pdb|2XZM|E Chain E, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|E Chain E, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 296
Score = 26.2 bits (56), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 6 NHDCLRLRRH-----YFALFRMFDGLTPVTDGSTEESEINLES-SNGIEEQEMEKECKVD 59
+ C R R + Y+AL + LTP G E++E+ E+ S + + +KE K
Sbjct: 201 SQGCTRTRGNFLKATYYALANTYRYLTPDFWGKPEDNELPFETFSEFLHTKAQKKEPKQY 260
Query: 60 FNKLDQIKKELDQIIKE 76
NK + KK D+ +E
Sbjct: 261 ENKRE--KKHFDRPRRE 275
>pdb|3AJE|A Chain A, Crystal Structure Of S. Tokodaii Sua5 Complexed With
L-Threonine And Amppnp
Length = 352
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 58 VDFNKLDQIKKELDQIIKELDQII--KELDLIIKESNQVIKELN 99
DFN+L ++ K++ + E+ QI+ L ++K++ +V KE+
Sbjct: 70 ADFNQLFEVAKDIPDKVLEIAQIVWPGPLTFVLKKTERVPKEVT 113
>pdb|2EQA|A Chain A, Crystal Structure Of The Hypothetical Sua5 Protein From
Sulfolobus Tokodaii
pdb|4E1B|A Chain A, Re-Refinement Of Pdb Entry 2eqa - Sua5 Protein From
Sulfolobus Tokodaii With Bound
Threonylcarbamoyladenylate
Length = 352
Score = 25.8 bits (55), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 58 VDFNKLDQIKKELDQIIKELDQII--KELDLIIKESNQVIKELN 99
DFN+L ++ K++ + E+ QI+ L ++K++ +V KE+
Sbjct: 70 ADFNQLFEVAKDIPDKVLEIAQIVWPGPLTFVLKKTERVPKEVT 113
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
0.315 0.136 0.353
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,964,307
Number of Sequences: 62578
Number of extensions: 157905
Number of successful extensions: 1159
Number of sequences better than 100.0: 190
Number of HSP's better than 100.0 without gapping: 83
Number of HSP's successfully gapped in prelim test: 107
Number of HSP's that attempted gapping in prelim test: 938
Number of HSP's gapped (non-prelim): 298
length of query: 151
length of database: 14,973,337
effective HSP length: 90
effective length of query: 61
effective length of database: 9,341,317
effective search space: 569820337
effective search space used: 569820337
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)