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= 019704
(337 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SC2|A Chain A, Refined Atomic Model Of Wheat Serine Carboxypeptidase Ii
At 2.2- Angstroms Resolution
Length = 259
Score = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 114/215 (53%), Positives = 144/215 (66%), Gaps = 3/215 (1%)
Query: 27 ADKIISLPGQPQASFQQYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPGCSS 86
AD+I LPGQP F Y+GYIT+DE R+LFY EA +A PLVLWLNGGPGCSS
Sbjct: 8 ADRIARLPGQPAVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCSS 67
Query: 87 IGAGAFCEHGPF--KPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDA 144
+ GA E G F KP+G L+ NEY WNK AN+L+L+SPAGVGFSY+ S + D
Sbjct: 68 VAYGASEELGAFRVKPAGAGLVLNEYRWNKVANVLFLDSPAGVGFSYTNTSSDIYTSGDN 127
Query: 145 IAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQS-NMKLNLKGIAIG 203
A D+ AFL W+E+FP YK R+F+I GESYAGHYVP+L+QL+ +S N +NLKG +G
Sbjct: 128 RTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVPELSQLVHRSKNPVINLKGFMVG 187
Query: 204 NPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVC 238
N L++ D+ EF W+HG++SD TY C
Sbjct: 188 NGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEAC 222
>pdb|1BCR|A Chain A, Complex Of The Wheat Serine Carboxypeptidase, Cpdw-Ii,
With The Microbial Peptide Aldehyde Inhibitor, Antipain,
And Arginine At Room Temperature
pdb|1BCS|A Chain A, Complex Of The Wheat Serine Carboxypeptidase, Cpdw-Ii,
With The Microbial Peptide Aldehyde Inhibitor,
Chymostatin, And Arginine At 100 Degrees Kelvin
Length = 263
Score = 231 bits (589), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 114/215 (53%), Positives = 143/215 (66%), Gaps = 3/215 (1%)
Query: 27 ADKIISLPGQPQASFQQYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPGCSS 86
AD+I LPGQP F Y+GYIT+DE R+LFY EA +A PLVLWLNGGPGCSS
Sbjct: 8 ADRIARLPGQPAVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCSS 67
Query: 87 IGAGAFCEHGPF--KPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDA 144
+ GA E G F KP G L+ NEY WNK AN+L+L+SPAGVGFSY+ S + D
Sbjct: 68 VAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVLFLDSPAGVGFSYTNTSSDIYTSGDN 127
Query: 145 IAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQS-NMKLNLKGIAIG 203
A D+ AFL W+E+FP YK R+F+I GESYAGHYVP+L+QL+ +S N +NLKG +G
Sbjct: 128 RTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVPELSQLVHRSKNPVINLKGFMVG 187
Query: 204 NPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVC 238
N L++ D+ EF W+HG++SD TY C
Sbjct: 188 NGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEAC 222
>pdb|1WHT|A Chain A, Structure Of The Complex Of L-Benzylsuccinate With Wheat
Serine Carboxypeptidase Ii At 2.0 Angstroms Resolution
Length = 256
Score = 231 bits (588), Expect = 6e-61, Method: Compositional matrix adjust.
Identities = 114/215 (53%), Positives = 143/215 (66%), Gaps = 3/215 (1%)
Query: 27 ADKIISLPGQPQASFQQYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPGCSS 86
AD+I LPGQP F Y+GYIT+DE R+LFY EA +A PLVLWLNGGPGCSS
Sbjct: 4 ADRIARLPGQPAVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCSS 63
Query: 87 IGAGAFCEHGPF--KPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDA 144
+ GA E G F KP G L+ NEY WNK AN+L+L+SPAGVGFSY+ S + D
Sbjct: 64 VAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVLFLDSPAGVGFSYTNTSSDIYTSGDN 123
Query: 145 IAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQS-NMKLNLKGIAIG 203
A D+ AFL W+E+FP YK R+F+I GESYAGHYVP+L+QL+ +S N +NLKG +G
Sbjct: 124 RTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVPELSQLVHRSKNPVINLKGFMVG 183
Query: 204 NPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVC 238
N L++ D+ EF W+HG++SD TY C
Sbjct: 184 NGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEAC 218
>pdb|1WHS|A Chain A, Structure Of The Complex Of L-Benzylsuccinate With Wheat
Serine Carboxypeptidase Ii At 2.0 Angstroms Resolution
Length = 255
Score = 231 bits (588), Expect = 6e-61, Method: Compositional matrix adjust.
Identities = 114/215 (53%), Positives = 143/215 (66%), Gaps = 3/215 (1%)
Query: 27 ADKIISLPGQPQASFQQYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPGCSS 86
AD+I LPGQP F Y+GYIT+DE R+LFY EA +A PLVLWLNGGPGCSS
Sbjct: 3 ADRIARLPGQPAVDFDMYSGYITVDEGAGRSLFYLLQEAPEDAQPAPLVLWLNGGPGCSS 62
Query: 87 IGAGAFCEHGPF--KPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDA 144
+ GA E G F KP G L+ NEY WNK AN+L+L+SPAGVGFSY+ S + D
Sbjct: 63 VAYGASEELGAFRVKPRGAGLVLNEYRWNKVANVLFLDSPAGVGFSYTNTSSDIYTSGDN 122
Query: 145 IAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQS-NMKLNLKGIAIG 203
A D+ AFL W+E+FP YK R+F+I GESYAGHYVP+L+QL+ +S N +NLKG +G
Sbjct: 123 RTAHDSYAFLAKWFERFPHYKYRDFYIAGESYAGHYVPELSQLVHRSKNPVINLKGFMVG 182
Query: 204 NPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVC 238
N L++ D+ EF W+HG++SD TY C
Sbjct: 183 NGLIDDYHDYVGTFEFWWNHGIVSDDTYRRLKEAC 217
>pdb|1GXS|A Chain A, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
pdb|1GXS|C Chain C, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
Length = 270
Score = 194 bits (492), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 113/263 (42%), Positives = 156/263 (59%), Gaps = 17/263 (6%)
Query: 26 QADKIISLPGQPQA-SFQQYAGYITIDEKQQRALFYYFVEAATEAASKP-LVLWLNGGPG 83
+ D+I+ LPGQP +F Y GY+TID+ RAL+Y+F EA T + LVLWLNGGPG
Sbjct: 6 EDDRILGLPGQPNGVAFGMYGGYVTIDDNNGRALYYWFQEADTADPAAAPLVLWLNGGPG 65
Query: 84 CSSIGAGAFCEHGPFK--PSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSV 141
CSSIG GA E G F+ +G++LL NEY+WNK AN+L+ ESPAGVGFSYS N S S+
Sbjct: 66 CSSIGLGAMQELGAFRVHTNGESLLLNEYAWNKAANILFAESPAGVGFSYS-NTSSDLSM 124
Query: 142 NDAIAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQSNMK---LNLK 198
D A+D FL W+E+FP Y REF+I GES GH++PQL+Q++ ++ +N +
Sbjct: 125 GDDKMAQDTYTFLVKWFERFPHYNYREFYIAGES--GHFIPQLSQVVYRNRNNSPFINFQ 182
Query: 199 GIAIGNPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVCNYSQIRRQYASGSLTAVCSQ 258
G+ + + L + D E W HGLISD T D +VC + T C++
Sbjct: 183 GLLVSSGLTNDHEDMIGMFESWWHHGLISDETRDSGLKVCPGTSFMHP------TPECTE 236
Query: 259 VISQVSREISRFVDTYDVTLDVC 281
V ++ E ++ Y + C
Sbjct: 237 VWNKALAEQGN-INPYTIYTPTC 258
>pdb|1IVY|A Chain A, Physiological Dimer Hpp Precursor
pdb|1IVY|B Chain B, Physiological Dimer Hpp Precursor
Length = 452
Score = 189 bits (480), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 128/341 (37%), Positives = 181/341 (53%), Gaps = 36/341 (10%)
Query: 25 PQADKIISLPG-QPQASFQQYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPG 83
P D+I LPG Q SF+QY+GY+ + L Y+FVE+ + + P+VLWLNGGPG
Sbjct: 2 PDQDEIQRLPGLAKQPSFRQYSGYLK--SSGSKHLHYWFVESQKDPENSPVVLWLNGGPG 59
Query: 84 CSSIGAGAFCEHGPF--KPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSV 141
CSS+ G EHGPF +P G TL N YSWN AN+LYLESPAGVGFSYS +K FY +
Sbjct: 60 CSSLD-GLLTEHGPFLVQPDGVTLEYNPYSWNLIANVLYLESPAGVGFSYSDDK-FYAT- 116
Query: 142 NDAIAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQSNMKLNLKGIA 201
ND A+ N L+ ++ FPEYKN + F+TGESYAG Y+P LA L++Q + +NL+G+A
Sbjct: 117 NDTEVAQSNFEALQDFFRLFPEYKNNKLFLTGESYAGIYIPTLAVLVMQ-DPSMNLQGLA 175
Query: 202 IGNPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVC------------------NYSQI 243
+GN L + + NS F + HGL+ + + C N ++
Sbjct: 176 VGNGLSSYEQNDNSLVYFAYYHGLLGNRLWSSLQTHCCSQNKCNFYDNKDLECVTNLQEV 235
Query: 244 RRQYASGSLT-----AVCSQVISQVSREISRFVDTYDV-TLDVCLPSVLLQSKMLSQLQD 297
R + L A C+ + R V D+ + LP + + L + D
Sbjct: 236 ARIVGNSGLNIYNLYAPCAGGVPSHFRYEKDTVVVQDLGNIFTRLPLKRMWHQALLRSGD 295
Query: 298 KEEIDVCVEDET--TKYLNRKDVQKALHAQLIGVTSWTVCS 336
K +D + T + YLN V+KAL+ + W +C+
Sbjct: 296 KVRMDPPCTNTTAASTYLNNPYVRKALNIP-EQLPQWDMCN 335
>pdb|4AZ0|A Chain A, Crystal Structure Of Cathepsin A, Complexed With 8a.
pdb|4AZ3|A Chain A, Crystal Structure Of Cathepsin A, Complexed With 15a
Length = 300
Score = 187 bits (476), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 104/218 (47%), Positives = 139/218 (63%), Gaps = 9/218 (4%)
Query: 24 VPQADKIISLPG-QPQASFQQYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGP 82
P D+I LPG Q SF+QY+GY+ + L Y+FVE+ + + P+VLWLNGGP
Sbjct: 3 APDQDEIQRLPGLAKQPSFRQYSGYLK--GSGSKHLHYWFVESQKDPENSPVVLWLNGGP 60
Query: 83 GCSSIGAGAFCEHGPF--KPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGS 140
GCSS+ G EHGPF +P G TL N YSWN AN+LYLESPAGVGFSYS +K FY +
Sbjct: 61 GCSSL-DGLLTEHGPFLVQPDGVTLEYNPYSWNLIANVLYLESPAGVGFSYSDDK-FY-A 117
Query: 141 VNDAIAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLIIQSNMKLNLKGI 200
ND A+ N L+ ++ FPEYKN + F+TGESYAG Y+P LA L++Q + +NL+G+
Sbjct: 118 TNDTEVAQSNFEALQDFFRLFPEYKNNKLFLTGESYAGIYIPTLAVLVMQ-DPSMNLQGL 176
Query: 201 AIGNPLLEFNTDFNSRAEFLWSHGLISDSTYDIFTRVC 238
A+GN L + + NS F + HGL+ + + C
Sbjct: 177 AVGNGLSSYEQNDNSLVYFAYYHGLLGNRLWSSLQTHC 214
>pdb|1WPX|A Chain A, Crystal Structure Of Carboxypeptidase Y Inhibitor
Complexed With The Cognate Proteinase
pdb|1YSC|A Chain A, 2.8 Angstroms Structure Of Yeast Serine Carboxypeptidase
Length = 421
Score = 132 bits (332), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 75/181 (41%), Positives = 104/181 (57%), Gaps = 19/181 (10%)
Query: 43 QYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPGCSSIGAGAFCEHGP----- 97
QY GY+ + E + + F++ E+ + A P++LWLNGGPGCSS+ G F E GP
Sbjct: 16 QYTGYLDV-EDEDKHFFFWTFESRNDPAKDPVILWLNGGPGCSSL-TGLFFELGPSSIGP 73
Query: 98 -FKPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAFLEG 156
KP G N YSWN A +++L+ P VGFSYS + G N A +D FLE
Sbjct: 74 DLKPIG-----NPYSWNSNATVIFLDQPVNVGFSYSGSS---GVSNTVAAGKDVYNFLEL 125
Query: 157 WYEKFPEYKNR--EFFITGESYAGHYVPQLAQLII-QSNMKLNLKGIAIGNPLLEFNTDF 213
++++FPEY N+ +F I GESYAGHY+P A I+ + NL + IGN L + T +
Sbjct: 126 FFDQFPEYVNKGQDFHIAGESYAGHYIPVFASEILSHKDRNFNLTSVLIGNGLTDPLTQY 185
Query: 214 N 214
N
Sbjct: 186 N 186
>pdb|1CPY|A Chain A, Site-Directed Mutagenesis On (Serine) Carboxypeptidase Y
From Yeast. The Significance Of Thr 60 And Met 398 In
Hydrolysis And Aminolysis Reactions
Length = 421
Score = 127 bits (320), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 73/181 (40%), Positives = 102/181 (56%), Gaps = 19/181 (10%)
Query: 43 QYAGYITIDEKQQRALFYYFVEAATEAASKPLVLWLNGGPGCSSIGAGAFCEHGP----- 97
QY GY+ + E + + F++ E+ + A P++LWLNGGPGCSS+ G F GP
Sbjct: 16 QYTGYLDV-EDEDKHFFFWTFESRNDPAKDPVILWLNGGPGCSSL-TGLFFALGPSSIGP 73
Query: 98 -FKPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAFLEG 156
KP G N YSWN A +++L+ P VGFSYS + G N A +D FLE
Sbjct: 74 DLKPIG-----NPYSWNSNATVIFLDQPVNVGFSYSGSS---GVSNTVAAGKDVYNFLEL 125
Query: 157 WYEKFPEYKNR--EFFITGESYAGHYVPQLAQLII-QSNMKLNLKGIAIGNPLLEFNTDF 213
++++FPEY N+ +F I G SYAGHY+P A I+ + NL + IGN L + T +
Sbjct: 126 FFDQFPEYVNKGQDFHIAGASYAGHYIPVFASEILSHKDRNFNLTSVLIGNGLTDPLTQY 185
Query: 214 N 214
N
Sbjct: 186 N 186
>pdb|1AC5|A Chain A, Crystal Structure Of Kex1(delta)p, A Prohormone-processing
Carboxypeptidase From Saccharomyces Cerevisiae
Length = 483
Score = 113 bits (283), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 77/228 (33%), Positives = 113/228 (49%), Gaps = 33/228 (14%)
Query: 33 LPG-----QPQASFQQYAGYITI-----DEKQQRALFYYFVEAATEAAS----KPLVLWL 78
LPG P Q +AG+I + DE+ L Y+F + ++ +PL++WL
Sbjct: 14 LPGLSEVPDPSNIPQMHAGHIPLRSEDADEQDSSDLEYFFWKFTNNDSNGNVDRPLIIWL 73
Query: 79 NGGPGCSSIGAGAFCEHGPFKPSGD-TLLRNEYSWNKEANMLYLESPAGVGFSYSANKS- 136
NGGPGCSS+ GA E GPF+ + D L NE SW + ++L+++ P G GFS NK
Sbjct: 74 NGGPGCSSMD-GALVESGPFRVNSDGKLYLNEGSWISKGDLLFIDQPTGTGFSVEQNKDE 132
Query: 137 -------FYGSVNDAIAARDNLAFLEGWYEKFPEYKNREFFITGESYAGHYVPQLAQLII 189
F + D + + FLE +++ FPE R+ ++GESYAG Y+P A I+
Sbjct: 133 GKIDKNKFDEDLEDV--TKHFMDFLENYFKIFPEDLTRKIILSGESYAGQYIPFFANAIL 190
Query: 190 QSNM-------KLNLKGIAIGNPLLEFNTDFNSRAEFLWSHGLISDST 230
N +LK + IGN ++ NT S F LI +S
Sbjct: 191 NHNKFSKIDGDTYDLKALLIGNGWIDPNTQSLSYLPFAMEKKLIDESN 238
>pdb|3SC2|B Chain B, Refined Atomic Model Of Wheat Serine Carboxypeptidase Ii
At 2.2- Angstroms Resolution
Length = 152
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 302 DVCVEDETTKYLNRKDVQKALHAQLIGVT--SWTVCSE 337
D C E +T Y NR+DVQ ALHA + G +W CS+
Sbjct: 3 DPCTERYSTAYYNRRDVQMALHANVTGAMNYTWATCSD 40
>pdb|1WHS|B Chain B, Structure Of The Complex Of L-Benzylsuccinate With Wheat
Serine Carboxypeptidase Ii At 2.0 Angstroms Resolution
Length = 153
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 302 DVCVEDETTKYLNRKDVQKALHAQLIGVT--SWTVCSE 337
D C E +T Y NR+DVQ ALHA + G +W CS+
Sbjct: 3 DPCTERYSTAYYNRRDVQMALHANVTGAMNYTWATCSD 40
>pdb|1BCR|B Chain B, Complex Of The Wheat Serine Carboxypeptidase, Cpdw-Ii,
With The Microbial Peptide Aldehyde Inhibitor, Antipain,
And Arginine At Room Temperature
pdb|1BCS|B Chain B, Complex Of The Wheat Serine Carboxypeptidase, Cpdw-Ii,
With The Microbial Peptide Aldehyde Inhibitor,
Chymostatin, And Arginine At 100 Degrees Kelvin
Length = 160
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 302 DVCVEDETTKYLNRKDVQKALHAQLIGVT--SWTVCSE 337
D C E +T Y NR+DVQ ALHA + G +W CS+
Sbjct: 5 DPCTERYSTAYYNRRDVQMALHANVTGAMNYTWATCSD 42
>pdb|1WHT|B Chain B, Structure Of The Complex Of L-Benzylsuccinate With Wheat
Serine Carboxypeptidase Ii At 2.0 Angstroms Resolution
Length = 153
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 18/38 (47%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 302 DVCVEDETTKYLNRKDVQKALHAQLIGVT--SWTVCSE 337
D C E +T Y NR+DVQ ALHA + G +W CS+
Sbjct: 3 DPCTERYSTAYYNRRDVQMALHANVTGAMNYTWATCSD 40
>pdb|1GXS|B Chain B, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
pdb|1GXS|D Chain D, Crystal Structure Of Hydroxynitrile Lyase From Sorghum
Bicolor In Complex With Inhibitor Benzoic Acid: A Novel
Cyanogenic Enzyme
Length = 158
Score = 35.4 bits (80), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 302 DVCVEDETTKYLNRKDVQKALHAQLIGVT--SWTVCS 336
D C + YLN +VQ ALHA + G+ WTVCS
Sbjct: 5 DPCAVFNSINYLNLPEVQTALHANVSGIVEYPWTVCS 41
>pdb|2YCM|A Chain A, Inhibitors Of Herbicidal Target Ispd
Length = 227
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 41/104 (39%), Gaps = 17/104 (16%)
Query: 245 RQYASGSLTAVCSQVISQVSREISRFVDTYDVTLDVCLPSVLLQSKMLSQLQDKEEIDV- 303
R + VC + E + ++ DV L +P Q + S LQ EIDV
Sbjct: 43 RMPEVKEIVVVCDPFFRDIFEE---YEESIDVDLSFAIPGKERQDSVYSGLQ---EIDVN 96
Query: 304 ----CVEDETTKYLNRKDVQKALH------AQLIGVTSWTVCSE 337
C+ D +N +DV+K L A ++GV + E
Sbjct: 97 SELVCIHDSARPLVNTEDVEKVLKDGSAVGAAVLGVPAKATIKE 140
>pdb|2YC3|A Chain A, Inhibitors Of The Herbicidal Target Ispd
pdb|2YC5|A Chain A, Inhibitors Of The Herbicidal Target Ispd
Length = 228
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 41/104 (39%), Gaps = 17/104 (16%)
Query: 245 RQYASGSLTAVCSQVISQVSREISRFVDTYDVTLDVCLPSVLLQSKMLSQLQDKEEIDV- 303
R + VC + E + ++ DV L +P Q + S LQ EIDV
Sbjct: 44 RMPEVKEIVVVCDPFFRDIFEE---YEESIDVDLSFAIPGKERQDSVYSGLQ---EIDVN 97
Query: 304 ----CVEDETTKYLNRKDVQKALH------AQLIGVTSWTVCSE 337
C+ D +N +DV+K L A ++GV + E
Sbjct: 98 SELVCIHDSARPLVNTEDVEKVLKDGSAVGAAVLGVPAKATIKE 141
>pdb|2QHP|A Chain A, Crystal Structure Of Fructokinase (Np_810670.1) From
Bacteroides Thetaiotaomicron Vpi-5482 At 1.80 A
Resolution
Length = 296
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 11 SALFCTTILTAKSVPQADKI 30
+A FC +IL KSVP+A K+
Sbjct: 250 TAAFCASILNGKSVPEAHKL 269
>pdb|1W77|A Chain A, 2c-methyl-d-erythritol 4-phosphate Cytidylyltransferase
(ispd) From Arabidopsis Thaliana
Length = 228
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 41/104 (39%), Gaps = 17/104 (16%)
Query: 245 RQYASGSLTAVCSQVISQVSREISRFVDTYDVTLDVCLPSVLLQSKMLSQLQDKEEIDV- 303
R + VC + E + ++ DV L +P Q + S LQ EIDV
Sbjct: 44 RMPEVKEIVVVCDPFFRDIFEE---YEESIDVDLRFAIPGKERQDSVYSGLQ---EIDVN 97
Query: 304 ----CVEDETTKYLNRKDVQKALH------AQLIGVTSWTVCSE 337
C+ D +N +DV+K L A ++GV + E
Sbjct: 98 SELVCIHDSARPLVNTEDVEKVLKDGSAVGAAVLGVPAKATIKE 141
>pdb|1VS6|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS8|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3I1N|F Chain F, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|F Chain F, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|F Chain F, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|F Chain F, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|F Chain F, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|F Chain F, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|F Chain F, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|3IYX|F Chain F, Coordinates Of The B1b Bridge-Forming Protein Structures
Fitted Into The Cryo-Em Map Of E.Coli 70s Ribosome
(Emd-1056)
pdb|3IYY|F Chain F, Coordinates Of The B1b Bridge-Forming Protein Structures
Fitted Into The Cryo-Em Map Of Efg.Gdpnp-Bound E.Coli
70s Ribosome(Emd-1363)
pdb|1VT2|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The First
70s Ribosome Bound To Cem-101.
pdb|3IZT|G Chain G, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|G Chain G, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3SGF|F Chain F, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|F Chain F, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAR|F Chain F, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|F Chain F, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 179
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 106 LRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAFLEGWYEKFPEYK 165
LR E W ++ + P F + KSF G N ++ R+ + F E Y+K +
Sbjct: 91 LRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVR 150
Query: 166 NREFFIT 172
+ IT
Sbjct: 151 GLDITIT 157
>pdb|1P85|D Chain D, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|D Chain D, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AW4|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AWB|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|2I2T|F Chain F, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2V|F Chain F, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2J28|F Chain F, Model Of E. Coli Srp Bound To 70s Rncs
pdb|2QOV|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|2QOX|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAO|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBC|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2VHM|F Chain F, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|F Chain F, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|2RDO|F Chain F, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3DF2|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The First 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3DF4|F Chain F, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The Second 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3BBX|F Chain F, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3FIK|F Chain F, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|3E1B|2 Chain 2, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|2 Chain 2, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
pdb|2WWQ|F Chain F, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3OFQ|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFD|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OG0|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3J01|F Chain F, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3J0T|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|G Chain G, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
Length = 178
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 106 LRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAFLEGWYEKFPEYK 165
LR E W ++ + P F + KSF G N ++ R+ + F E Y+K +
Sbjct: 90 LRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVR 149
Query: 166 NREFFIT 172
+ IT
Sbjct: 150 GLDITIT 156
>pdb|2GYA|D Chain D, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|D Chain D, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 177
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 106 LRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAFLEGWYEKFPEYK 165
LR E W ++ + P F + KSF G N ++ R+ + F E Y+K +
Sbjct: 89 LRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVR 148
Query: 166 NREFFIT 172
+ IT
Sbjct: 149 GLDITIT 155
>pdb|3OFR|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFZ|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OAT|F Chain F, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Telithromycin Bound.
pdb|3R8S|F Chain F, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|F Chain F, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J19|F Chain F, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
Length = 177
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 29/67 (43%)
Query: 106 LRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAFLEGWYEKFPEYK 165
LR E W ++ + P F + KSF G N ++ R+ + F E Y+K +
Sbjct: 90 LRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVR 149
Query: 166 NREFFIT 172
+ IT
Sbjct: 150 GLDITIT 156
>pdb|1AF2|A Chain A, Crystal Structure Of Cytidine Deaminase Complexed With
Uridine
pdb|1ALN|A Chain A, Crystal Structure Of Cytidine Deaminase Complexed With
3-deazacytidine
pdb|1CTT|A Chain A, Transition-state Selectivity For A Single Oh Group During
Catalysis By Cytidine Deaminase
pdb|1CTU|A Chain A, Transition-State Selectivity For A Single Oh Group During
Catalysis By Cytidine Deaminase
Length = 294
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)
Query: 94 EHGPFKPSGDTLLRNEYSWNKEANMLYLESPAGVGFSYSANKSFYGSVNDAIAARDNLAF 153
+HG + +GD L + + ++M Y +SP+GV + F GS + A L
Sbjct: 181 DHG-YALTGDALSQAAIAAANRSHMPYSKSPSGVALECKDGRIFSGSYAENAAFNPTLPP 239
Query: 154 LEG 156
L+G
Sbjct: 240 LQG 242
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
0.319 0.134 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,050,629
Number of Sequences: 62578
Number of extensions: 409115
Number of successful extensions: 1053
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1000
Number of HSP's gapped (non-prelim): 29
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
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: 52 (24.6 bits)