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= psy8588
(265 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KUI|A Chain A, Nmr Structure Of The Pasta Domain Of Mycobacterium
Tuberculo Pknb
Length = 275
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 15 QYVDLARK-LKYYGFIEFEPCTCDFPKP 41
Q VD+A+K L YGF +F + D P+P
Sbjct: 152 QTVDVAQKNLNVYGFTKFSQASVDSPRP 179
>pdb|2KUE|A Chain A, Nmr Structure Of The Pasta Domain 2 And 3 Of Mycobacterium
Tuberculosis Of Pknb
Length = 138
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 15 QYVDLARK-LKYYGFIEFEPCTCDFPKP 41
Q VD+A+K L YGF +F + D P+P
Sbjct: 84 QTVDVAQKNLNVYGFTKFSQASVDSPRP 111
>pdb|2KUF|A Chain A, Nmr Structure Of The Pasta Domain 3 And 4 Of
Mycobacterium Tuberculosis Of Pknb
Length = 139
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 1 MSMWMRFYPEVTPFQYVDLARK-LKYYGFIEFEPCTCDFPKP 41
M + P+V Q VD+A+K L YGF +F + D P+P
Sbjct: 3 MGPATKDIPDVA-GQTVDVAQKNLNVYGFTKFSQASVDSPRP 43
>pdb|3INN|A Chain A, Crystal Structure Of Pantoate-Beta-Alanine-Ligase In
Complex With Atp At Low Occupancy At 2.1 A Resolution
pdb|3INN|B Chain B, Crystal Structure Of Pantoate-Beta-Alanine-Ligase In
Complex With Atp At Low Occupancy At 2.1 A Resolution
pdb|3INN|C Chain C, Crystal Structure Of Pantoate-Beta-Alanine-Ligase In
Complex With Atp At Low Occupancy At 2.1 A Resolution
pdb|3INN|D Chain D, Crystal Structure Of Pantoate-Beta-Alanine-Ligase In
Complex With Atp At Low Occupancy At 2.1 A Resolution
Length = 314
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 4/85 (4%)
Query: 49 LEYDLELMC-YVALISFNMSSPLHYW--DLEYDLELMTDPVGLDILYAQAVSDVHRESIV 105
+E D+ L+ +V + F + L + DLE D L+ D +D L+A VSD++ +
Sbjct: 67 VENDVTLVSIFVNPLQFGANEDLGRYPRDLERDAGLLHD-AQVDYLFAPTVSDMYPRPMQ 125
Query: 106 VHKDTKTILNQLEASGAKKEYVDLA 130
D + NQ+E + +A
Sbjct: 126 TVVDVPPLGNQIEGEARPGHFAGVA 150
>pdb|3ZXJ|A Chain A, Engineering The Active Site Of A Gh43 Glycoside Hydrolase
Generates A Biotechnologically Significant Enzyme That
Displays Both Endo-Xylanase And Exo-Arabinofuranosidase
Activity
pdb|3ZXJ|B Chain B, Engineering The Active Site Of A Gh43 Glycoside Hydrolase
Generates A Biotechnologically Significant Enzyme That
Displays Both Endo-Xylanase And Exo-Arabinofuranosidase
Activity
Length = 542
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 6/87 (6%)
Query: 7 FYPEVTPFQYVDLARKLKYYGFIEFEPCTCDFPKPNISSYWDLEYDLELM----CYVALI 62
FY + F Y A LK Y + + P T P+ N S +DL + + +
Sbjct: 29 FYYSSSTFAYSPGAPVLKSYDLVHWTPVTHSVPRLNFGSNYDLPSGTPGAYVKGIWASTL 88
Query: 63 SFNMSSPLHYWD--LEYDLELMTDPVG 87
+ S+ YW +E L T P G
Sbjct: 89 RYRRSNDRFYWYGCVEGRTYLWTSPGG 115
>pdb|3ZXK|A Chain A, Engineering The Active Site Of A Gh43 Glycoside Hydrolase
Generates A Biotechnologically Significant Enzyme That
Displays Both Endo-Xylanase And Exo-Arabinofuranosidase
Activity
pdb|3ZXK|B Chain B, Engineering The Active Site Of A Gh43 Glycoside Hydrolase
Generates A Biotechnologically Significant Enzyme That
Displays Both Endo-Xylanase And Exo-Arabinofuranosidase
Activity
Length = 542
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 6/87 (6%)
Query: 7 FYPEVTPFQYVDLARKLKYYGFIEFEPCTCDFPKPNISSYWDLEYDLELM----CYVALI 62
FY + F Y A LK Y + + P T P+ N S +DL + + +
Sbjct: 29 FYYSSSTFAYSPGAPVLKSYDLVHWTPVTHSVPRLNFGSNYDLPSGTPGAYVKGIWASTL 88
Query: 63 SFNMSSPLHYWD--LEYDLELMTDPVG 87
+ S+ YW +E L T P G
Sbjct: 89 RYRRSNDRFYWYGCVEGRTYLWTSPGG 115
>pdb|3ZXL|A Chain A, Engineering The Active Site Of A Gh43 Glycoside Hydrolase
Generates A Biotechnologically Significant Enzyme That
Displays Both Endo-Xylanase And Exo-Arabinofuranosidase
Activity
pdb|3ZXL|B Chain B, Engineering The Active Site Of A Gh43 Glycoside Hydrolase
Generates A Biotechnologically Significant Enzyme That
Displays Both Endo-Xylanase And Exo-Arabinofuranosidase
Activity
Length = 542
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 6/87 (6%)
Query: 7 FYPEVTPFQYVDLARKLKYYGFIEFEPCTCDFPKPNISSYWDLEYDLELM----CYVALI 62
FY + F Y A LK Y + + P T P+ N S +DL + + +
Sbjct: 29 FYYSSSTFAYSPGAPVLKSYDLVHWTPVTHSVPRLNFGSNYDLPSGTPGAYVKGIWASTL 88
Query: 63 SFNMSSPLHYWD--LEYDLELMTDPVG 87
+ S+ YW +E L T P G
Sbjct: 89 RYRRSNDRFYWYGCVEGRTYLWTSPGG 115
>pdb|2QDM|A Chain A, Crystal Structure Of The Heptp Catalytic Domain
C270sD236AQ314A Mutant
Length = 309
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 67/165 (40%), Gaps = 23/165 (13%)
Query: 39 PKPN-ISSYWDLEYDLELMCYVALISFNMSSP--LHYWDLEYDLELMTDPVGLDILYAQA 95
P PN +S +W++ + E+ V L +HYW E E P + I +
Sbjct: 120 PMPNTVSDFWEMVWQEEVSLIVMLTQLREGKEKCVHYWPTE---EETYGPFQIRIQDMKE 176
Query: 96 VSD--VHRESIVVHKDTKTILNQLEASGAKKEYVDLARKL-KYYGFIEFEPCTCDFPKPN 152
+ V + +I ++ +++ + L ++ + + A L + +E P T P P
Sbjct: 177 CPEYTVRQLTIQYQEERRSVKHILFSAWPAHQTPESAGPLLRLVAEVEESPETAAHPGP- 235
Query: 153 TKVVVNIGLREINFRIRSSEGEIREGTFKVTRMRCWKITINKEED 197
+VV+ SS G R G F TR+ C ++ E D
Sbjct: 236 --IVVH-----------SSAGIGRTGCFIATRIGCQQLKARGEVD 267
>pdb|2HVL|A Chain A, Crystal Structure Of The Heptp Catalytic Domain C270s
Mutant
pdb|2QDP|A Chain A, Crystal Structure Of The Heptp Catalytic Domain C270s
Mutant Crystallized In Ammonium Acetate
Length = 309
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 67/165 (40%), Gaps = 23/165 (13%)
Query: 39 PKPN-ISSYWDLEYDLELMCYVALISFNMSSP--LHYWDLEYDLELMTDPVGLDILYAQA 95
P PN +S +W++ + E+ V L +HYW E E P + I +
Sbjct: 120 PMPNTVSDFWEMVWQEEVSLIVMLTQLREGKEKCVHYWPTE---EETYGPFQIRIQDMKE 176
Query: 96 VSD--VHRESIVVHKDTKTILNQLEASGAKKEYVDLARKL-KYYGFIEFEPCTCDFPKPN 152
+ V + +I ++ +++ + L ++ + + A L + +E P T P P
Sbjct: 177 CPEYTVRQLTIQYQEERRSVKHILFSAWPDHQTPESAGPLLRLVAEVEESPETAAHPGP- 235
Query: 153 TKVVVNIGLREINFRIRSSEGEIREGTFKVTRMRCWKITINKEED 197
+VV+ SS G R G F TR+ C ++ E D
Sbjct: 236 --IVVH-----------SSAGIGRTGCFIATRIGCQQLKARGEVD 267
>pdb|3D42|A Chain A, Crystal Structure Of Heptp In Complex With A
Monophosphorylated Erk2 Peptide
pdb|3D44|A Chain A, Crystal Structure Of Heptp In Complex With A Dually
Phosphorylated Erk2 Peptide Mimetic
Length = 308
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 67/165 (40%), Gaps = 23/165 (13%)
Query: 39 PKPN-ISSYWDLEYDLELMCYVALISFNMSSP--LHYWDLEYDLELMTDPVGLDILYAQA 95
P PN +S +W++ + E+ V L +HYW E E P + I +
Sbjct: 119 PMPNTVSDFWEMVWQEEVSLIVMLTQLREGKEKCVHYWPTE---EETYGPFQIRIQDMKE 175
Query: 96 VSD--VHRESIVVHKDTKTILNQLEASGAKKEYVDLARKL-KYYGFIEFEPCTCDFPKPN 152
+ V + +I ++ +++ + L ++ + + A L + +E P T P P
Sbjct: 176 CPEYTVRQLTIQYQEERRSVKHILFSAWPDHQTPESAGPLLRLVAEVEESPETAAHPGP- 234
Query: 153 TKVVVNIGLREINFRIRSSEGEIREGTFKVTRMRCWKITINKEED 197
+VV+ SS G R G F TR+ C ++ E D
Sbjct: 235 --IVVH-----------SSAGIGRTGCFIATRIGCQQLKARGEVD 266
>pdb|2GB7|A Chain A, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2GB7|B Chain B, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2GB7|C Chain C, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2GB7|D Chain D, Metal-Depleted Ecl18ki In Complex With Uncleaved, Modified
Dna
pdb|2FQZ|A Chain A, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
pdb|2FQZ|B Chain B, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
pdb|2FQZ|C Chain C, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
pdb|2FQZ|D Chain D, Metal-Depleted Ecl18ki In Complex With Uncleaved Dna
Length = 305
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%)
Query: 30 EFEPCTCDFPKPNISSYWDLEYDLELMCYVALISFNMSSPLHYWDL 75
EFEP +F +S D E ++ Y A+ F M P H +DL
Sbjct: 63 EFEPFEKEFTTRMLSYLIDEERIKDMSPYDAIRDFTMEYPTHIYDL 108
>pdb|2ETW|A Chain A, Principles Of Protein-Dna Recognition Revealed In The
Structural Analysis Of Ndt80-Mse Dna Complexes
pdb|2EUV|A Chain A, Principles Of Protein-Dna Recognition Revealed In The
Structural Analysis Of Ndt80-Mse Dna Complexes
pdb|2EUW|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Mutant Ma4t)
pdb|2EUX|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Variant Va4g)
pdb|2EUZ|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Mutant Mc5t)
pdb|2EVF|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Mutant Ma6t)
pdb|2EVG|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Mutant Ma7t)
pdb|2EVH|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Mutant Ma7g)
pdb|2EVI|A Chain A, Structure Of A Ndt80-Dna Complex (Mse Mutant Ma8t)
pdb|2EVJ|A Chain A, Structure Of An Ndt80-Dna Complex (Mse Mutant Ma9c)
Length = 345
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 83 TDPVGLDILYAQAVSDVHRE-SIVVHKDTKTILNQLEASGAKKEYVDLARKLK 134
TDPV D L VS RE S +DT IL QL G Y D RKLK
Sbjct: 12 TDPVLQDDL----VSKYERELSTEQEEDTPVILTQLNEDGTTSNYFD-KRKLK 59
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 0.135 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,789,329
Number of Sequences: 62578
Number of extensions: 309377
Number of successful extensions: 740
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 732
Number of HSP's gapped (non-prelim): 19
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
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)