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= psy10745
(197 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|E Chain E, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|I Chain I, Pax5(1-149)+ets-1(331-440)+dna
pdb|1MDM|A Chain A, Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5
Bound To Dna
Length = 149
Score = 115 bits (287), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 55/69 (79%), Positives = 58/69 (84%)
Query: 14 RYYETGSFKAGVIGGSKPKVATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVP 73
RYYETGS K GVIGGSKPKVAT VV+ IA YKR+NPTMFAWEIRDRLLAE +C D VP
Sbjct: 71 RYYETGSIKPGVIGGSKPKVATPKVVEKIAEYKRQNPTMFAWEIRDRLLAERVCDNDTVP 130
Query: 74 SVSSINRYI 82
SVSSINR I
Sbjct: 131 SVSSINRII 139
Score = 111 bits (277), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 53/55 (96%), Positives = 53/55 (96%)
Query: 119 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHNGVRPCDISRQLRVSHGCVSKILSR 173
HGGVNQLGGVFVNGRPLPDVVRQRIVELAH GVRPCDISRQLRVSHGCVSKIL R
Sbjct: 17 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHQGVRPCDISRQLRVSHGCVSKILGR 71
>pdb|2K27|A Chain A, Solution Structure Of Human Pax8 Paired Box Domain
Length = 159
Score = 115 bits (287), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 54/69 (78%), Positives = 58/69 (84%)
Query: 14 RYYETGSFKAGVIGGSKPKVATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVP 73
RYYETGS + GVIGGSKPKVAT VV+ I YKR+NPTMFAWEIRDRLLAEG+C D VP
Sbjct: 64 RYYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPTMFAWEIRDRLLAEGVCDNDTVP 123
Query: 74 SVSSINRYI 82
SVSSINR I
Sbjct: 124 SVSSINRII 132
Score = 104 bits (260), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 49/55 (89%), Positives = 52/55 (94%)
Query: 119 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHNGVRPCDISRQLRVSHGCVSKILSR 173
HGG+NQLGG FVNGRPLP+VVRQRIV+LAH GVRPCDISRQLRVSHGCVSKIL R
Sbjct: 10 HGGLNQLGGAFVNGRPLPEVVRQRIVDLAHQGVRPCDISRQLRVSHGCVSKILGR 64
>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna
Complex Reveals A General Model For Pax Protein-Dna
Interactions
Length = 133
Score = 101 bits (252), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 46/69 (66%), Positives = 56/69 (81%)
Query: 14 RYYETGSFKAGVIGGSKPKVATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVP 73
RYY TGS + IGGSKP+VAT VV IA YK+E P++FAWEIRDRLL+EG+C+ DN+P
Sbjct: 56 RYYATGSIRPRAIGGSKPRVATPEVVSKIAQYKQECPSIFAWEIRDRLLSEGVCTNDNIP 115
Query: 74 SVSSINRYI 82
SVSSINR +
Sbjct: 116 SVSSINRVL 124
Score = 97.1 bits (240), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 46/55 (83%), Positives = 49/55 (89%)
Query: 119 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHNGVRPCDISRQLRVSHGCVSKILSR 173
H GVNQLGGVFVNGRPLPD RQRIVELAH+G RPCDISR L+VS+GCVSKIL R
Sbjct: 2 HSGVNQLGGVFVNGRPLPDSTRQRIVELAHSGARPCDISRILQVSNGCVSKILGR 56
>pdb|1PDN|C Chain C, Crystal Structure Of A Paired Domain-Dna Complex At 2.5
Angstroms Resolution Reveals Structural Basis For Pax
Developmental Mutations
Length = 128
Score = 88.6 bits (218), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 42/63 (66%), Positives = 51/63 (80%)
Query: 119 HGGVNQLGGVFVNGRPLPDVVRQRIVELAHNGVRPCDISRQLRVSHGCVSKILSRESNLH 178
G VNQLGGVF+NGRPLP+ +R +IVE+A +G+RPC ISRQLRVSHGCVSKIL+R
Sbjct: 2 QGRVNQLGGVFINGRPLPNNIRLKIVEMAADGIRPCVISRQLRVSHGCVSKILNRYQETG 61
Query: 179 NYR 181
+ R
Sbjct: 62 SIR 64
Score = 87.0 bits (214), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 37/69 (53%), Positives = 52/69 (75%)
Query: 14 RYYETGSFKAGVIGGSKPKVATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVP 73
RY ETGS + GVIGGSKP++AT + + I YKR +P MF+WEIR++L+ EG+C + P
Sbjct: 56 RYQETGSIRPGVIGGSKPRIATPEIENRIEEYKRSSPGMFSWEIREKLIREGVCDRSTAP 115
Query: 74 SVSSINRYI 82
SVS+I+R +
Sbjct: 116 SVSAISRLV 124
>pdb|4HG6|A Chain A, Structure Of A Cellulose Synthase - Cellulose
Translocation Intermediate
Length = 802
Score = 31.6 bits (70), Expect = 0.33, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 90 GGVNQLGGVFVNGRPLPDVVRQRIVASRSHGGVNQLGGVFVNGRPLPDVVRQRIVEL 146
GG+ Q F + L +VR RI ++R GG +G +F G+P+ VR+ + L
Sbjct: 634 GGLIQFQPKFPDAPQLERMVRGRIRSARREGGTVMVGVIFEAGQPI--AVRETVAYL 688
>pdb|3N07|A Chain A, Structure Of Putative 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Phosphatase From Vibrio Cholerae
pdb|3N07|B Chain B, Structure Of Putative 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Phosphatase From Vibrio Cholerae
pdb|3N07|C Chain C, Structure Of Putative 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Phosphatase From Vibrio Cholerae
pdb|3N07|D Chain D, Structure Of Putative 3-Deoxy-D-Manno-Octulosonate
8-Phosphate Phosphatase From Vibrio Cholerae
Length = 195
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/57 (24%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 52 MFAWEIRDRLLAEGICSQDNVPSVSSINRYITYVPIGHGGVNQLGGVFVNGRPLPDV 108
+ W + +++ A +C D P ++ Y+T++ GHG V ++ + + R DV
Sbjct: 126 LIDWPVXEKV-ALRVCVADGHPLLAQRANYVTHIKGGHGAVREVCDLILQARNELDV 181
>pdb|1E19|A Chain A, Structure Of The Carbamate Kinase-Like Carbamoyl Phosphate
Synthetase From The Hyperthermophilic Archaeon
Pyrococcus Furiosus Bound To Adp
pdb|1E19|B Chain B, Structure Of The Carbamate Kinase-Like Carbamoyl Phosphate
Synthetase From The Hyperthermophilic Archaeon
Pyrococcus Furiosus Bound To Adp
Length = 314
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 16/24 (66%), Gaps = 3/24 (12%)
Query: 13 RRYYETGSFKAGVIGGSKPKVATA 36
R+YYE G FKAG +G PKV A
Sbjct: 261 RKYYEEGHFKAGSMG---PKVLAA 281
>pdb|3LW7|A Chain A, The Crystal Structure Of An Adenylate Kinase-Related
Protein Bound To Amp From Sulfolobus Solfataricus To
2.3a
pdb|3LW7|B Chain B, The Crystal Structure Of An Adenylate Kinase-Related
Protein Bound To Amp From Sulfolobus Solfataricus To
2.3a
Length = 179
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 135 LPDVVRQRIVELAHNGVRPCDISRQLRVSH--GCVSKILSRESNLHNYRLVREEGCFELS 192
+ DVVR+R A G R D +++LR + G V+++ E N+ LV +G L+
Sbjct: 31 MSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLA 90
Query: 193 DLE 195
++E
Sbjct: 91 EVE 93
>pdb|3H0K|A Chain A, Crystal Structure Of An Adenylated Kinase Related Protein
From Sulfolobus Solfataricus To 3.25a
pdb|3H0K|B Chain B, Crystal Structure Of An Adenylated Kinase Related Protein
From Sulfolobus Solfataricus To 3.25a
Length = 178
Score = 27.7 bits (60), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 2/63 (3%)
Query: 135 LPDVVRQRIVELAHNGVRPCDISRQLRVSH--GCVSKILSRESNLHNYRLVREEGCFELS 192
+ DVVR+R A G R D +++LR + G V+++ E N+ LV +G L+
Sbjct: 30 MSDVVRKRYSIEAKPGERLMDFAKRLREIYGDGVVARLCVEELGTSNHDLVVFDGVRSLA 89
Query: 193 DLE 195
++E
Sbjct: 90 EVE 92
>pdb|3LQ2|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With Low Tdp Concentration
pdb|3LQ2|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With Low Tdp Concentration
pdb|3LQ4|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With High Tdp Concentration
pdb|3LQ4|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 E235a Mutant
With High Tdp Concentration
Length = 886
Score = 27.7 bits (60), Expect = 4.6, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 27/55 (49%)
Query: 33 VATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVPSVSSINRYITYVPI 87
+ T + AI S RE A + D+LLAE NV + + I+ YI +P+
Sbjct: 11 IETRDWLQAIESVIREEGVERAQYLIDQLLAEARKGGVNVAAGTGISNYINTIPV 65
>pdb|3LPL|A Chain A, E. Coli Pyruvate Dehydrogenase Complex E1 Component
E571a Mutant
pdb|3LPL|B Chain B, E. Coli Pyruvate Dehydrogenase Complex E1 Component
E571a Mutant
Length = 886
Score = 27.7 bits (60), Expect = 4.6, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 27/55 (49%)
Query: 33 VATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVPSVSSINRYITYVPI 87
+ T + AI S RE A + D+LLAE NV + + I+ YI +P+
Sbjct: 11 IETRDWLQAIESVIREEGVERAQYLIDQLLAEARKGGVNVAAGTGISNYINTIPV 65
>pdb|2QTA|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Thiamin Diphosphate
pdb|2QTA|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Thiamin Diphosphate
pdb|2QTC|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Phosphonolactylthiamin Diphosphate
pdb|2QTC|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component E401k Mutant
With Phosphonolactylthiamin Diphosphate
Length = 886
Score = 27.7 bits (60), Expect = 4.6, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 27/55 (49%)
Query: 33 VATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVPSVSSINRYITYVPI 87
+ T + AI S RE A + D+LLAE NV + + I+ YI +P+
Sbjct: 11 IETRDWLQAIESVIREEGVERAQYLIDQLLAEARKGGVNVAAGTGISNYINTIPV 65
>pdb|1L8A|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|1L8A|B Chain B, E. Coli Pyruvate Dehydrogenase
pdb|1RP7|A Chain A, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
pdb|1RP7|B Chain B, E. Coli Pyruvate Dehydrogenase Inhibitor Complex
pdb|2G25|A Chain A, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
Diphosphate Complex
pdb|2G25|B Chain B, E. Coli Pyruvate Dehydrogenase Phosphonolactylthiamin
Diphosphate Complex
pdb|2G28|A Chain A, E. Coli Pyruvate Dehydrogenase H407a Variant
Phosphonolactylthiamin Diphosphate Complex
pdb|2G28|B Chain B, E. Coli Pyruvate Dehydrogenase H407a Variant
Phosphonolactylthiamin Diphosphate Complex
pdb|2G67|A Chain A, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
pdb|2G67|B Chain B, E. Coli Pyruvate Dehydrogenase E1 Component (Apoenzyme)
pdb|2IEA|A Chain A, E. Coli Pyruvate Dehydrogenase
pdb|2IEA|B Chain B, E. Coli Pyruvate Dehydrogenase
Length = 886
Score = 27.7 bits (60), Expect = 4.7, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 27/55 (49%)
Query: 33 VATAPVVDAIASYKRENPTMFAWEIRDRLLAEGICSQDNVPSVSSINRYITYVPI 87
+ T + AI S RE A + D+LLAE NV + + I+ YI +P+
Sbjct: 11 IETRDWLQAIESVIREEGVERAQYLIDQLLAEARKGGVNVAAGTGISNYINTIPV 65
>pdb|3T7B|A Chain A, Crystal Structure Of N-Acetyl-L-Glutamate Kinase From
Yersinia Pestis
pdb|3T7B|B Chain B, Crystal Structure Of N-Acetyl-L-Glutamate Kinase From
Yersinia Pestis
Length = 260
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 49 NPTMFAWEIRDRLLAEGICSQD-NVPSVSSINRYITYV 85
N T+ AW ++ ++ A G+C D N +V+ ++ + +V
Sbjct: 87 NKTLLAWAVKHQINAVGLCLADGNTVTVTLLDAELGHV 124
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
0.321 0.140 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,976,184
Number of Sequences: 62578
Number of extensions: 240455
Number of successful extensions: 520
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 481
Number of HSP's gapped (non-prelim): 47
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
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: 49 (23.5 bits)