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= 028531
(208 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RYM|A Chain A, Structure Of The Group Ii Intron Splicing Factor Crs2
Length = 212
Score = 200 bits (508), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 96/196 (48%), Positives = 129/196 (65%), Gaps = 10/196 (5%)
Query: 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
PWL GLGNPG+KY GTRHNVGFEM+D A +GI+MNT K+ G G +G+ PVL+ K
Sbjct: 17 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTEQSKSLLGIGSIGEVPVLVVK 76
Query: 78 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
PQ+YMN SGE+ GPLAAYY++PL +L+ +DD LP GV ++V+ +
Sbjct: 77 PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 136
Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
GIG PPG+MDP+AFLLQKF++ R +IDTAL++GV+ ++ L+ KG +
Sbjct: 137 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 196
Query: 188 SARHFNTIQKYKHIRL 203
S FN +QKYK R+
Sbjct: 197 STERFNLVQKYKFHRV 212
>pdb|1RYB|A Chain A, Crystal Structure Of The Chloroplast Group Ii Intron
Splicing Factor Crs2
Length = 205
Score = 195 bits (496), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 92/189 (48%), Positives = 125/189 (66%), Gaps = 10/189 (5%)
Query: 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
PWL GLGNPG+KY GTRHNVGFEM+D A +GI+MNT+ K+ G G +G+ PVL+ K
Sbjct: 17 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTIQSKSLLGIGSIGEVPVLVVK 76
Query: 78 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
PQ+YMN SGE+ GPLAAYY++PL +L+ +DD LP GV ++V+ +
Sbjct: 77 PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 136
Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
GIG PPG+MDP+AFLLQKF++ R +IDTAL++GV+ ++ L+ KG +
Sbjct: 137 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 196
Query: 188 SARHFNTIQ 196
S FN +Q
Sbjct: 197 STERFNLVQ 205
>pdb|1RYN|A Chain A, Structure Of The Chloroplast Group Ii Intron Splicing
Factor Crs2
Length = 202
Score = 194 bits (493), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 93/190 (48%), Positives = 125/190 (65%), Gaps = 10/190 (5%)
Query: 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAK 77
PWL GLGNPG+KY GTRHNVGFEM+D A +GI+MNT K+ G G +G+ PVL+ K
Sbjct: 5 PWLIAGLGNPGNKYYGTRHNVGFEMVDRIAAEEGITMNTNQFKSLLGTGSIGEVPVLVVK 64
Query: 78 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNN 137
PQ+YMN SGE+ GPLAAYY++PL +L+ +DD LP GV ++V+ +
Sbjct: 65 PQSYMNYSGEAIGPLAAYYQVPLRHILLIYDDTSLPNGVLRLQKKGGHGRHNGLQNVIEH 124
Query: 138 FR----------GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTE 187
GIG PPG+MDP+AFLLQKF++ R +IDTAL++GV+ ++ L+ KG +
Sbjct: 125 LDGRREFPRLSIGIGSPPGKMDPRAFLLQKFSSEERVQIDTALEQGVDAVRTLVLKGFSG 184
Query: 188 SARHFNTIQK 197
S FN +QK
Sbjct: 185 STERFNLVQK 194
>pdb|2LGJ|A Chain A, Solution Structure Of Mspth
Length = 191
Score = 119 bits (297), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 73/195 (37%), Positives = 105/195 (53%), Gaps = 15/195 (7%)
Query: 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK--ATFGQGFVGDAP 72
+A P L VGLGNPG Y TRHN+GF + D A G S VH K A G +
Sbjct: 1 MAEPLLVVGLGNPGPTYAKTRHNLGFMVADVLAGRIG-SAFKVHKKSGAEVVTGRLAGTS 59
Query: 73 VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXK 132
V+LAKP+ YMN SG GPLA +Y +P +++V HD++ + G +
Sbjct: 60 VVLAKPRCYMNESGRQVGPLAKFYSVPPQQIVVIHDELDIDFGRIRLKLGGGEGGHNGLR 119
Query: 133 SVMN-----NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSK 183
SV + NF G+GRPPG+ DP AF+L+ F A R + T +++ + +LL+++
Sbjct: 120 SVASALGTKNFHRVRIGVGRPPGRKDPAAFVLENFTAAERAEVPTIVEQAADATELLIAQ 179
Query: 184 GLTESARHFNTIQKY 198
GL E A+ NT+ +
Sbjct: 180 GL-EPAQ--NTVHAW 191
>pdb|3KJZ|A Chain A, Crystal Structure Of Native Peptidyl-Trna Hydrolase From
Mycobacterium Smegmatis
pdb|3KK0|A Chain A, Crystal Structure Of Partially Folded Intermediate State
Of Peptidyl- Trna Hydrolase From Mycobacterium Smegmatis
pdb|3P2J|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Mycobacterium Smegmatis At 2.2 A Resolution
Length = 191
Score = 115 bits (287), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 71/195 (36%), Positives = 104/195 (53%), Gaps = 15/195 (7%)
Query: 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCK--ATFGQGFVGDAP 72
+A P L VGLGNPG Y TRHN+GF + D A G S VH K A G +
Sbjct: 1 MAEPLLVVGLGNPGPTYAKTRHNLGFMVADVLAGRIG-SAFKVHKKSGAEVVTGRLAGTT 59
Query: 73 VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXK 132
V+LAKP+ MN SG GPLA +Y +P +++V HD++ + G +
Sbjct: 60 VVLAKPRISMNESGRQVGPLAKFYSVPPQQIVVIHDELDIDFGRIRLKLGGGEGGHNGLR 119
Query: 133 SVMN-----NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSK 183
SV + NF G+GRPPG+ DP AF+L+ F + R + T +++ + +LL+++
Sbjct: 120 SVASALGTKNFHRVRIGVGRPPGRKDPAAFVLENFTSAERAEVPTIVEQAADATELLIAQ 179
Query: 184 GLTESARHFNTIQKY 198
GL E A+ NT+ +
Sbjct: 180 GL-EPAQ--NTVHAW 191
>pdb|2JRC|A Chain A, Solution Structure Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis H37rv
Length = 204
Score = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 63/181 (34%), Positives = 89/181 (49%), Gaps = 10/181 (5%)
Query: 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPV 73
+A P L VGLGNPG Y TRHN+GF + D A G A G +
Sbjct: 1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSL 60
Query: 74 LLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKS 133
+LAKP+ YMN SG GPLA +Y + ++V HDD+ L G +S
Sbjct: 61 VLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRS 120
Query: 134 VM-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
V+ +F+ GIGRPPG+ DP AF+L+ F R + T ++ + +LL+ +G
Sbjct: 121 VVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQG 180
Query: 185 L 185
+
Sbjct: 181 M 181
>pdb|2Z2I|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis
pdb|2Z2J|A Chain A, Crystal Structure Of Peptidyl-trna Hydrolase From
Mycobacterium Tuberculosis
pdb|2Z2J|B Chain B, Crystal Structure Of Peptidyl-trna Hydrolase From
Mycobacterium Tuberculosis
pdb|2Z2K|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis
pdb|3TCK|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis - Form 4
pdb|3TCN|A Chain A, Crystal Structures Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis - Form 2 Grown In Presence Of
Pentaglycine
pdb|3TCN|B Chain B, Crystal Structures Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis - Form 2 Grown In Presence Of
Pentaglycine
pdb|3TD2|A Chain A, Crystal Structures Of Peptidyl-Trna Hydrolase From
Mycobacterium Tuberculosis - Form 5
pdb|3TD6|A Chain A, Peptidyl-Trna Hydrolase From Mycobacterium Tuberculosis
From Trigonal Partially Dehydrated Crystal
Length = 191
Score = 108 bits (270), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 63/181 (34%), Positives = 89/181 (49%), Gaps = 10/181 (5%)
Query: 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPV 73
+A P L VGLGNPG Y TRHN+GF + D A G A G +
Sbjct: 1 MAEPLLVVGLGNPGANYARTRHNLGFVVADLLAARLGAKFKAHKRSGAEVATGRSAGRSL 60
Query: 74 LLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKS 133
+LAKP+ YMN SG GPLA +Y + ++V HDD+ L G +S
Sbjct: 61 VLAKPRCYMNESGRQIGPLAKFYSVAPANIIVIHDDLDLEFGRIRLKIGGGEGGHNGLRS 120
Query: 134 VM-----NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
V+ +F+ GIGRPPG+ DP AF+L+ F R + T ++ + +LL+ +G
Sbjct: 121 VVAALGTKDFQRVRIGIGRPPGRKDPAAFVLENFTPAERAEVPTICEQAADATELLIEQG 180
Query: 185 L 185
+
Sbjct: 181 M 181
>pdb|3V2I|A Chain A, Structure Of A Peptidyl-Trna Hydrolase (Pth) From
Burkholderia Thailandensis
Length = 222
Score = 81.3 bits (199), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 57/190 (30%), Positives = 87/190 (45%), Gaps = 21/190 (11%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKP 78
L VGLGNPG +Y TRHN GF ++D A G ++ + + + + V L +P
Sbjct: 25 LIVGLGNPGAEYTATRHNAGFWLVDQLAREAGATLRDERRFHGFYAKARLYGEEVHLLEP 84
Query: 79 QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVMNNF 138
QTYMN SG+S LA ++K+ N +LV HD++ LP G K + +
Sbjct: 85 QTYMNRSGQSVVALAHFFKILPNEILVAHDELDLPPGAVKLKLGGGSGGHNGLKDISAHL 144
Query: 139 R---------GIGRPPGQM----------DPKAFLLQKFNAIARERIDTALQEGVEVLKL 179
GIG P + D F+L+ ++ ID A++ + V+
Sbjct: 145 SSQQYWRLRIGIGHPRDMIPESARAGAKPDVANFVLKPPRKEEQDVIDAAIERALAVMPA 204
Query: 180 LLSKGLTESA 189
++ KG TE A
Sbjct: 205 VV-KGETERA 213
>pdb|4FOP|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Acinetobacter Baumannii At 1.86 A Resolution
pdb|4FOT|A Chain A, Crystal Structure Of Peptidyl- Trna Hydrolase From
Acinetobacter Baumannii At 2.20 A Resolution
pdb|4HOY|A Chain A, Crystal Structure Of Peptidyl- Trna Hydrolase From
Acinetobacter Baumannii At 1.78 A Resolution
pdb|4IKO|A Chain A, Structure Of Peptidyl- Trna Hydrolase From Acinetobacter
Baumannii At 1.90 A Resolution
Length = 193
Score = 80.5 bits (197), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 55/189 (29%), Positives = 88/189 (46%), Gaps = 12/189 (6%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKP 78
L VGLGNPG +Y TRHN GF ++ A+ GI++ N G+G + V L P
Sbjct: 6 LIVGLGNPGSEYAQTRHNAGFWFVEQLADKYGITLKNDPKFHGISGRGNIEGHDVRLLLP 65
Query: 79 QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM--- 135
TYMN SG+S P + +Y++ +L+ HD++ + GV + ++
Sbjct: 66 MTYMNRSGQSVVPFSKFYQIAPEAILIAHDELDMNPGVIRLKTGGGHGGHNGLRDIVPHI 125
Query: 136 -NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 190
NF GIG P + +L K + + +D A+ + +KLL+ + ++
Sbjct: 126 GPNFHRLRIGIGHPGSKERVSGHVLGKAPSNEQSLMDGAIDHALSKVKLLVQGQVPQA-- 183
Query: 191 HFNTIQKYK 199
N I YK
Sbjct: 184 -MNQINAYK 191
>pdb|2PTH|A Chain A, Peptidyl-Trna Hydrolase From Escherichia Coli
Length = 193
Score = 78.6 bits (192), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/191 (28%), Positives = 88/191 (46%), Gaps = 17/191 (8%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATF----GQGFVGDAPVLL 75
L VGL NPG +Y TRHN G +D AE + +A F + +G V L
Sbjct: 4 LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLRE---EAKFFGYTSRVTLGGEDVRL 60
Query: 76 AKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM 135
P T+MNLSG++ +A+++++ + +LV HD++ LP GV K ++
Sbjct: 61 LVPTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 120
Query: 136 N------NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
+ NF GIG P + F+L K ++ ID A+ E ++ + GL
Sbjct: 121 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 180
Query: 186 TESARHFNTIQ 196
T++ + +
Sbjct: 181 TKATNRLHAFK 191
>pdb|3VJR|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli In Complex With The
Cca-Acceptor-T[psi]c Domain Of Trna
pdb|3VJR|C Chain C, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli In Complex With The
Cca-Acceptor-T[psi]c Domain Of Trna
Length = 197
Score = 78.6 bits (192), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 54/191 (28%), Positives = 88/191 (46%), Gaps = 17/191 (8%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATF----GQGFVGDAPVLL 75
L VGL NPG +Y TRHN G +D AE + +A F + +G V L
Sbjct: 8 LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLRE---EAKFFGYTSRVTLGGEDVRL 64
Query: 76 AKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM 135
P T+MNLSG++ +A+++++ + +LV HD++ LP GV K ++
Sbjct: 65 LVPTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 124
Query: 136 N------NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
+ NF GIG P + F+L K ++ ID A+ E ++ + GL
Sbjct: 125 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 184
Query: 186 TESARHFNTIQ 196
T++ + +
Sbjct: 185 TKATNRLHAFK 195
>pdb|4DHW|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Pseudomonas Aeruginosa With Adipic Acid At 2.4 Angstrom
Resolution
pdb|4DHW|B Chain B, Crystal Structure Of Peptidyl-Trna Hydrolase From
Pseudomonas Aeruginosa With Adipic Acid At 2.4 Angstrom
Resolution
pdb|4DJJ|A Chain A, Crystal Structure Of The Complex Of Peptidyl-Trna
Hydrolase From Pseudomonas Aeruginosa With Pimelic Acid
At 2.9 Angstrom Resolution
pdb|4DJJ|B Chain B, Crystal Structure Of The Complex Of Peptidyl-Trna
Hydrolase From Pseudomonas Aeruginosa With Pimelic Acid
At 2.9 Angstrom Resolution
pdb|4ERX|A Chain A, Crystal Structure Of The Complex Of Peptidyl-Trna
Hydrolase From Pseudomonas Aeruginosa With Diethylene
Glycol At 2.5 Angstrom Resolution
pdb|4ERX|B Chain B, Crystal Structure Of The Complex Of Peptidyl-Trna
Hydrolase From Pseudomonas Aeruginosa With Diethylene
Glycol At 2.5 Angstrom Resolution
pdb|4FNO|A Chain A, Crystal Structure Of Peptidyl T-Rna Hydrolase From
Pseudomonas Aeruginosa At 2.2 Angstrom Resolution
pdb|4FNO|B Chain B, Crystal Structure Of Peptidyl T-Rna Hydrolase From
Pseudomonas Aeruginosa At 2.2 Angstrom Resolution
Length = 194
Score = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 56/190 (29%), Positives = 91/190 (47%), Gaps = 19/190 (10%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGD-----APVL 74
L VGLGNPG +Y TRHN G ++ A +QG+S+ V + F G VG V
Sbjct: 6 LIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSL--VADRKYF--GLVGKFSHQGKDVR 61
Query: 75 LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV 134
L P TYMN SG+S LA ++++ + +LV HD++ +P GV + +
Sbjct: 62 LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDI 121
Query: 135 M------NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
+ N+F GIG P ++L + +E +DT++ + VL +L+
Sbjct: 122 IAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQELLDTSIDFALGVLPEMLAGD 181
Query: 185 LTESARHFNT 194
T + + ++
Sbjct: 182 WTRAMQKLHS 191
>pdb|4FYJ|A Chain A, Crystal Structure Of P. Aeruginosa Peptidyl-Trna Hydrolase
Length = 199
Score = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 56/190 (29%), Positives = 91/190 (47%), Gaps = 19/190 (10%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGD-----APVL 74
L VGLGNPG +Y TRHN G ++ A +QG+S+ V + F G VG V
Sbjct: 12 LIVGLGNPGPEYDQTRHNAGALFVERLAHAQGVSL--VADRKYF--GLVGKFSHQGKDVR 67
Query: 75 LAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV 134
L P TYMN SG+S LA ++++ + +LV HD++ +P GV + +
Sbjct: 68 LLIPTTYMNRSGQSVAALAGFFRIAPDAILVAHDELDMPPGVAKLKTGGGHGGHNGLRDI 127
Query: 135 M------NNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG 184
+ N+F GIG P ++L + +E +DT++ + VL +L+
Sbjct: 128 IAQLGNQNSFHRLRLGIGHPGHSSLVSGYVLGRAPRSEQELLDTSIDFALGVLPEMLAGD 187
Query: 185 LTESARHFNT 194
T + + ++
Sbjct: 188 WTRAMQKLHS 197
>pdb|3OFV|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli, I222 Crystal Form
pdb|3OFV|B Chain B, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli, I222 Crystal Form
pdb|3OFV|C Chain C, Crystal Structure Of Peptidyl-Trna Hydrolase From
Escherichia Coli, I222 Crystal Form
Length = 211
Score = 77.8 bits (190), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 54/189 (28%), Positives = 87/189 (46%), Gaps = 17/189 (8%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATF----GQGFVGDAPVLL 75
L VGL NPG +Y TRHN G +D AE + +A F + +G V L
Sbjct: 25 LIVGLANPGAEYAATRHNAGAWFVDLLAERLRAPLRE---EAKFFGYTSRVTLGGEDVRL 81
Query: 76 AKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSVM 135
P T+MNLSG++ +A+++++ + +LV HD++ LP GV K ++
Sbjct: 82 LVPTTFMNLSGKAVAAMASFFRINPDEILVAHDELDLPPGVAKFKLGGGHGGHNGLKDII 141
Query: 136 N------NFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
+ NF GIG P + F+L K ++ ID A+ E ++ + GL
Sbjct: 142 SKLGNNPNFHRLRIGIGHPGDKNKVVGFVLGKPPVSEQKLIDEAIDEAARCTEMWFTDGL 201
Query: 186 TESARHFNT 194
T++ +
Sbjct: 202 TKATNRLHA 210
>pdb|3NEA|A Chain A, Crystal Structure Of Peptidyl-Trna Hydrolase From
Francisella Tularensis
Length = 207
Score = 63.9 bits (154), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 14/178 (7%)
Query: 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT---VHCKATFGQGFVGDAPVLLA 76
+ +GLGN G +Y+ TRHNVG I A+ S ++ ++C + + V+L
Sbjct: 25 MIIGLGNIGKEYQDTRHNVGEWFIAKIAQDNNQSFSSNPKLNC--NLAKVSIDYNNVVLV 82
Query: 77 KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVXXXXXXXXXXXXXXXKSV-- 134
P TYMN SG + +A +YK+ +LV HD++ + G +S+
Sbjct: 83 FPTTYMNNSGLAVSKVANFYKIAPAEILVVHDELDIDSGEIRLKKGGGHGGHNGLRSINQ 142
Query: 135 ---MNNFR----GIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGL 185
N++ GIG P + ++L + ++ ID+A+ G+ L +++ L
Sbjct: 143 HLGTNDYLRLRIGIGHPGHKSKVANYVLSNPSIAQKKDIDSAIDNGICFLDDIINYKL 200
>pdb|3S5T|A Chain A, Crystal Structure Of A Member Of Duf3298 Family (Bf2082)
From Bacteroides Fragilis Nctc 9343 At 2.30 A
Resolution
Length = 265
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 53 SMNTVHCKATFGQGFVGDAPVLLAKPQT 80
S+N+ A FG+G++G+ P + K T
Sbjct: 56 SLNSYFIAACFGEGYIGEKPAQVVKEYT 83
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
0.324 0.140 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,720,888
Number of Sequences: 62578
Number of extensions: 208840
Number of successful extensions: 448
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 402
Number of HSP's gapped (non-prelim): 16
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)