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= 028081
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1W77|A Chain A, 2c-methyl-d-erythritol 4-phosphate Cytidylyltransferase
(ispd) From Arabidopsis Thaliana
Length = 228
Score = 354 bits (909), Expect = 2e-98, Method: Compositional matrix adjust.
Identities = 170/211 (80%), Positives = 192/211 (90%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M +MPKQY+PLLGQPIALYSF+TFSRM EVKEIVVVCDP + DIFEE +E I+VDL+F+
Sbjct: 18 MKMSMPKQYIPLLGQPIALYSFFTFSRMPEVKEIVVVCDPFFRDIFEEYEESIDVDLRFA 77
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVPAKA 120
+PGKERQDSVYSGLQE+D NSELVCIHDSARPLV ++DV+KVL D VGAAVLGVPAKA
Sbjct: 78 IPGKERQDSVYSGLQEIDVNSELVCIHDSARPLVNTEDVEKVLKDGSAVGAAVLGVPAKA 137
Query: 121 TIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLKH 180
TIKE NS+S VV+TLDRKTLWEMQTPQVIKP+LLKKGFELV EGLEVTDDVSIVE+LKH
Sbjct: 138 TIKEVNSDSLVVKTLDRKTLWEMQTPQVIKPELLKKGFELVKSEGLEVTDDVSIVEYLKH 197
Query: 181 PVYITEGSYTNIKVTTPDDLLIAERILNLSS 211
PVY+++GSYTNIKVTTPDDLL+AERIL+ S
Sbjct: 198 PVYVSQGSYTNIKVTTPDDLLLAERILSEDS 228
>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 = 353 bits (907), Expect = 3e-98, Method: Compositional matrix adjust.
Identities = 170/211 (80%), Positives = 191/211 (90%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M +MPKQY+PLLGQPIALYSF+TFSRM EVKEIVVVCDP + DIFEE +E I+VDL F+
Sbjct: 18 MKMSMPKQYIPLLGQPIALYSFFTFSRMPEVKEIVVVCDPFFRDIFEEYEESIDVDLSFA 77
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVPAKA 120
+PGKERQDSVYSGLQE+D NSELVCIHDSARPLV ++DV+KVL D VGAAVLGVPAKA
Sbjct: 78 IPGKERQDSVYSGLQEIDVNSELVCIHDSARPLVNTEDVEKVLKDGSAVGAAVLGVPAKA 137
Query: 121 TIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLKH 180
TIKE NS+S VV+TLDRKTLWEMQTPQVIKP+LLKKGFELV EGLEVTDDVSIVE+LKH
Sbjct: 138 TIKEVNSDSLVVKTLDRKTLWEMQTPQVIKPELLKKGFELVKSEGLEVTDDVSIVEYLKH 197
Query: 181 PVYITEGSYTNIKVTTPDDLLIAERILNLSS 211
PVY+++GSYTNIKVTTPDDLL+AERIL+ S
Sbjct: 198 PVYVSQGSYTNIKVTTPDDLLLAERILSEDS 228
>pdb|2YCM|A Chain A, Inhibitors Of Herbicidal Target Ispd
Length = 227
Score = 353 bits (906), Expect = 4e-98, Method: Compositional matrix adjust.
Identities = 170/211 (80%), Positives = 191/211 (90%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M +MPKQY+PLLGQPIALYSF+TFSRM EVKEIVVVCDP + DIFEE +E I+VDL F+
Sbjct: 17 MKMSMPKQYIPLLGQPIALYSFFTFSRMPEVKEIVVVCDPFFRDIFEEYEESIDVDLSFA 76
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVPAKA 120
+PGKERQDSVYSGLQE+D NSELVCIHDSARPLV ++DV+KVL D VGAAVLGVPAKA
Sbjct: 77 IPGKERQDSVYSGLQEIDVNSELVCIHDSARPLVNTEDVEKVLKDGSAVGAAVLGVPAKA 136
Query: 121 TIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLKH 180
TIKE NS+S VV+TLDRKTLWEMQTPQVIKP+LLKKGFELV EGLEVTDDVSIVE+LKH
Sbjct: 137 TIKEVNSDSLVVKTLDRKTLWEMQTPQVIKPELLKKGFELVKSEGLEVTDDVSIVEYLKH 196
Query: 181 PVYITEGSYTNIKVTTPDDLLIAERILNLSS 211
PVY+++GSYTNIKVTTPDDLL+AERIL+ S
Sbjct: 197 PVYVSQGSYTNIKVTTPDDLLLAERILSEDS 227
>pdb|3N9W|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase (Ispd) In Complex With
1,2-Propanediol
pdb|3N9W|B Chain B, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase (Ispd) In Complex With
1,2-Propanediol
Length = 235
Score = 100 bits (249), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 66/207 (31%), Positives = 101/207 (48%), Gaps = 6/207 (2%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M PKQYL + Q I +S + VK +V+ P S F + + +
Sbjct: 20 MQTECPKQYLSIGNQTILEHSVHALLAHPRVKRVVIAISPGDSR-FAQLPLANHPQITVV 78
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLM--DALRVGAAVLGVPA 118
G ER DSV +GL+ +++ V +HD+ARP + D+ ++L + R G +L P
Sbjct: 79 DGGDERADSVLAGLKAAG-DAQWVLVHDAARPCLHQDDLARLLALSETSRTGG-ILAAPV 136
Query: 119 KATIKEAN-SESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEH 177
+ T+K A ++ + T+DR LW TPQ +LL EG +TD+ S +E+
Sbjct: 137 RDTMKRAEPGKNAIAHTVDRNGLWHALTPQFFPRELLHDCLTRALNEGATITDEASALEY 196
Query: 178 LKHPVYITEGSYTNIKVTTPDDLLIAE 204
+ EG NIKVT P+DL +AE
Sbjct: 197 CGFHPQLVEGRADNIKVTRPEDLALAE 223
>pdb|1I52|A Chain A, Crystal Structure Of
4-Diphosphocytidyl-2-C-Methylerythritol (Cdp-Me)
Synthase (Ygbp) Involved In Mevalonate Independent
Isoprenoid Biosynthesis
pdb|1INJ|A Chain A, Crystal Structure Of The Apo Form Of
4-Diphosphocytidyl-2-C- Methylerythritol (Cdp-Me)
Synthetase (Ygbp) Involved In Mevalonate Independent
Isoprenoid Biosynthesis
pdb|1INI|A Chain A, Crystal Structure Of
4-diphosphocytidyl-2-c-methylerythritol (cdp-me)
Synthetase (ygbp) Involved In Mevalonate Independent
Isoprenoid Biosynthesis, Complexed With Cdp-me And Mg2+
Length = 236
Score = 100 bits (249), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 66/207 (31%), Positives = 101/207 (48%), Gaps = 6/207 (2%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M PKQYL + Q I +S + VK +V+ P S F + + +
Sbjct: 21 MQTECPKQYLSIGNQTILEHSVHALLAHPRVKRVVIAISPGDSR-FAQLPLANHPQITVV 79
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLM--DALRVGAAVLGVPA 118
G ER DSV +GL+ +++ V +HD+ARP + D+ ++L + R G +L P
Sbjct: 80 DGGDERADSVLAGLKAAG-DAQWVLVHDAARPCLHQDDLARLLALSETSRTGG-ILAAPV 137
Query: 119 KATIKEAN-SESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEH 177
+ T+K A ++ + T+DR LW TPQ +LL EG +TD+ S +E+
Sbjct: 138 RDTMKRAEPGKNAIAHTVDRNGLWHALTPQFFPRELLHDCLTRALNEGATITDEASALEY 197
Query: 178 LKHPVYITEGSYTNIKVTTPDDLLIAE 204
+ EG NIKVT P+DL +AE
Sbjct: 198 CGFHPQLVEGRADNIKVTRPEDLALAE 224
>pdb|1H3M|A Chain A, Structure Of 4-Diphosphocytidyl-2c-Methyl-D-Erythritol
Synthetase
pdb|1H3M|B Chain B, Structure Of 4-Diphosphocytidyl-2c-Methyl-D-Erythritol
Synthetase
Length = 235
Score = 100 bits (249), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 66/207 (31%), Positives = 101/207 (48%), Gaps = 6/207 (2%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M PKQYL + Q I +S + VK +V+ P S F + + +
Sbjct: 20 MQTECPKQYLSIGNQTILEHSVHALLAHPRVKRVVIAISPGDSR-FAQLPLANHPQITVV 78
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLM--DALRVGAAVLGVPA 118
G ER DSV +GL+ +++ V +HD+ARP + D+ ++L + R G +L P
Sbjct: 79 DGGDERADSVLTGLKAAG-DAQWVLVHDAARPCLHQDDLARLLALSETSRTGG-ILAAPV 136
Query: 119 KATIKEAN-SESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEH 177
+ T+K A ++ + T+DR LW TPQ +LL EG +TD+ S +E+
Sbjct: 137 RDTMKRAEPGKNAIAHTVDRNGLWHALTPQFFPRELLHDCLTRALNEGATITDEASALEY 196
Query: 178 LKHPVYITEGSYTNIKVTTPDDLLIAE 204
+ EG NIKVT P+DL +AE
Sbjct: 197 CGFHPQLVEGRADNIKVTRPEDLALAE 223
>pdb|1VGT|A Chain A, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGT|B Chain B, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGU|A Chain A, Crystal Structure Of 4-Diphosphocytidyl-2c-Methyl-D-
Erythritol Synthase
pdb|1VGU|B Chain B, Crystal Structure Of 4-Diphosphocytidyl-2c-Methyl-D-
Erythritol Synthase
Length = 238
Score = 100 bits (249), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 66/207 (31%), Positives = 101/207 (48%), Gaps = 6/207 (2%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFS 60
M PKQYL + Q I +S + VK +V+ P S F + + +
Sbjct: 23 MQTECPKQYLSIGNQTILEHSVHALLAHPRVKRVVIAISPGDSR-FAQLPLANHPQITVV 81
Query: 61 LPGKERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLM--DALRVGAAVLGVPA 118
G ER DSV +GL+ +++ V +HD+ARP + D+ ++L + R G +L P
Sbjct: 82 DGGDERADSVLAGLKAAG-DAQWVLVHDAARPCLHQDDLARLLALSETSRTGG-ILAAPV 139
Query: 119 KATIKEAN-SESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEH 177
+ T+K A ++ + T+DR LW TPQ +LL EG +TD+ S +E+
Sbjct: 140 RDTMKRAEPGKNAIAHTVDRNGLWHALTPQFFPRELLHDCLTRALNEGATITDEASALEY 199
Query: 178 LKHPVYITEGSYTNIKVTTPDDLLIAE 204
+ EG NIKVT P+DL +AE
Sbjct: 200 CGFHPQLVEGRADNIKVTRPEDLALAE 226
>pdb|2PX7|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase From Thermus Thermophilus Hb8
pdb|2PX7|B Chain B, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase From Thermus Thermophilus Hb8
Length = 236
Score = 89.7 bits (221), Expect = 9e-19, Method: Compositional matrix adjust.
Identities = 64/206 (31%), Positives = 98/206 (47%), Gaps = 13/206 (6%)
Query: 6 PKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFSLPGKE 65
PK +L + G+ + ++ F + E++V P + + F G
Sbjct: 43 PKAFLQVGGRTLLEWTLAAFR---DAAEVLVALPPG-------AEPPKGLGAVFLEGGAT 92
Query: 66 RQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVPAKATIKEA 125
RQ SV L+ LV +HD ARP V V +VL A R GAAV +P T+
Sbjct: 93 RQASVARLLEAASL--PLVLVHDVARPFVSRGLVARVLEAAQRSGAAVPVLPVPDTLMAP 150
Query: 126 NSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLKHPVYIT 185
E++ R + R+ +QTPQ LL++ R+GLE +DD +V+ L +PV +
Sbjct: 151 EGEAYG-RVVPREAFRLVQTPQGFFTALLREAHAYARRKGLEASDDAQLVQALGYPVALV 209
Query: 186 EGSYTNIKVTTPDDLLIAERILNLSS 211
EG T K+T P DL++AE + + S
Sbjct: 210 EGEATAFKITHPQDLVLAEALARVWS 235
>pdb|2XWL|A Chain A, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Ctp And Mg
pdb|2XWL|B Chain B, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Ctp And Mg
pdb|2XWM|A Chain A, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Cmp
pdb|2XWM|B Chain B, Crystal Structure Of Ispd From Mycobacterium Smegmatis In
Complex With Cmp
Length = 223
Score = 89.7 bits (221), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 67/208 (32%), Positives = 105/208 (50%), Gaps = 10/208 (4%)
Query: 3 ANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFSLP 62
A PK ++ L G P+ ++ + IV+ P+ +D E+K + +
Sbjct: 18 AGRPKAFVTLGGTPLLEHALSGLRASGVIDRIVIAVPPALTD---ESKLVFGGEDSVIVS 74
Query: 63 GK-ERQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVG--AAVLGVPAK 119
G +R +SV L E ++E V +HD+AR L + +V+ AL+ G A V G+
Sbjct: 75 GGVDRTESVALAL-EAAGDAEFVLVHDAARALTPPALIARVVA-ALKEGHSAVVPGLAPA 132
Query: 120 ATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLK 179
TIK ++ V+ T +R L +QTPQ D+L++ + G VTDD S+VE L
Sbjct: 133 DTIKAVDANGAVLGTPERAGLRAVQTPQGFHADVLRRAYARATAGG--VTDDASLVEQLG 190
Query: 180 HPVYITEGSYTNIKVTTPDDLLIAERIL 207
PV I +G K+TTP DL++AE +L
Sbjct: 191 TPVQIVDGDPLAFKITTPLDLVLAEAVL 218
>pdb|1VGZ|A Chain A, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGZ|B Chain B, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
Length = 241
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 62/216 (28%), Positives = 105/216 (48%), Gaps = 14/216 (6%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDP--SYSDIFEETKEKINVDLK 58
GA+ PKQY+ + + + + F R V VVV P +++D + ++ V
Sbjct: 20 FGADKPKQYVEIGSKTVLEHVLGIFERHEAVDLTVVVVSPEDTFADKVQTAFPQVRV--- 76
Query: 59 FSLPGKERQDSVYSG---LQEVDFNSEL--VCIHDSARPLVLSKDVQKVLMDALRVG-AA 112
+ G+ R ++V +G L E +E + +HD+AR + S+ + +++ A
Sbjct: 77 WKNGGQTRAETVRNGVAKLLETGLAAETDNILVHDAARCCLPSEALARLIEQAGNAAEGG 136
Query: 113 VLGVPAKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDV 172
+L VP T+K A S + T+DR LW+ QTPQ+ + LL + N G +TD+
Sbjct: 137 ILAVPVADTLKRAESGQ-ISATVDRSGLWQAQTPQLFQAGLLHRALAAENLGG--ITDEA 193
Query: 173 SIVEHLKHPVYITEGSYTNIKVTTPDDLLIAERILN 208
S VE L + +G N+K+T P D I +L+
Sbjct: 194 SAVEKLGVRPLLIQGDARNLKLTQPQDAYIVRLLLD 229
>pdb|1VGW|A Chain A, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGW|B Chain B, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGW|C Chain C, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGW|D Chain D, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGW|E Chain E, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
pdb|1VGW|F Chain F, Crystal Structure Of
4-Diphosphocytidyl-2c-Methyl-D-Erythritol Synthase
Length = 231
Score = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 62/216 (28%), Positives = 105/216 (48%), Gaps = 14/216 (6%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDP--SYSDIFEETKEKINVDLK 58
GA+ PKQY+ + + + + F R V VVV P +++D + ++ V
Sbjct: 20 FGADKPKQYVEIGSKTVLEHVLGIFERHEAVDLTVVVVSPEDTFADKVQTAFPQVRV--- 76
Query: 59 FSLPGKERQDSVYSG---LQEVDFNSEL--VCIHDSARPLVLSKDVQKVLMDALRVG-AA 112
+ G+ R ++V +G L E +E + +HD+AR + S+ + +++ A
Sbjct: 77 WKNGGQTRAETVRNGVAKLLETGLAAETDNILVHDAARCCLPSEALARLIEQAGNAAEGG 136
Query: 113 VLGVPAKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDV 172
+L VP T+K A S + T+DR LW+ QTPQ+ + LL + N G +TD+
Sbjct: 137 ILAVPVADTLKRAESGQ-ISATVDRSGLWQAQTPQLFQAGLLHRALAAENLGG--ITDEA 193
Query: 173 SIVEHLKHPVYITEGSYTNIKVTTPDDLLIAERILN 208
S VE L + +G N+K+T P D I +L+
Sbjct: 194 SAVEKLGVRPLLIQGDARNLKLTQPQDAYIVRLLLD 229
>pdb|1VPA|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase (Tm1393) From Thermotoga Maritima
At 2.67 A Resolution
pdb|1VPA|B Chain B, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase (Tm1393) From Thermotoga Maritima
At 2.67 A Resolution
Length = 234
Score = 80.5 bits (197), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 64/207 (30%), Positives = 101/207 (48%), Gaps = 14/207 (6%)
Query: 1 MGANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEET--KEKINVDLK 58
M N+PKQ+L + G+ + Y TF + + +V+V + ++ E+ EK+ L
Sbjct: 27 MSENVPKQFLEIEGRMLFEYPLSTFLKSEAIDGVVIVTRREWFEVVEKRVFHEKV---LG 83
Query: 59 FSLPGKERQDSVYSGLQEVD-FNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVP 117
G R SV S L+ ++ F+ V +HDSARP + K V +VL A GAA L +
Sbjct: 84 IVEGGDTRSQSVRSALEFLEKFSPSYVLVHDSARPFLRKKHVSEVLRRARETGAATLALK 143
Query: 118 -AKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVE 176
+ A ++ N + + RK ++ + TPQ ++LKK E G E DD V+
Sbjct: 144 NSDALVRVENDR---IEYIPRKGVYRILTPQAFSYEILKKAHE----NGGEWADDTEPVQ 196
Query: 177 HLKHPVYITEGSYTNIKVTTPDDLLIA 203
L + + EG KVT +DL +A
Sbjct: 197 KLGVKIALVEGDPLCFKVTFKEDLELA 223
>pdb|2XWN|A Chain A, Crystal Structure Of Ispd From Mycobacterium Tuberculosis
In Complex With Ctp And Mg
pdb|2XWN|B Chain B, Crystal Structure Of Ispd From Mycobacterium Tuberculosis
In Complex With Ctp And Mg
Length = 233
Score = 72.4 bits (176), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 57/172 (33%), Positives = 90/172 (52%), Gaps = 7/172 (4%)
Query: 43 SDIFEETKEKINVDLKFSLPGKERQDSVYSGLQEVDFNSE--LVCIHDSARPLVLSKDVQ 100
+D +E ++ + G R D+V L + +E V +HD+AR L V
Sbjct: 60 ADRTDEARQILGHRAMIVAGGSNRTDTVNLALTVLSGTAEPEFVLVHDAARALTPPALVA 119
Query: 101 KVLMDALRVG-AAVLGV-PAKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGF 158
+V ++ALR G AAV+ V P TIK ++ V+ T +R L +QTPQ DLL + +
Sbjct: 120 RV-VEALRDGYAAVVPVLPLSDTIKAVDANGVVLGTPERAGLRAVQTPQGFTTDLLLRSY 178
Query: 159 EL--VNREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLIAERILN 208
+ ++ E TDD S+VEH+ V + +G K+TT DLL+A+ I++
Sbjct: 179 QRGSLDLPAAEYTDDASLVEHIGGQVQVVDGDPLAFKITTKLDLLLAQAIVH 230
>pdb|3OKR|A Chain A, Structure Of Mtb Apo 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd)
pdb|3OKR|B Chain B, Structure Of Mtb Apo 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd)
pdb|3OKR|C Chain C, Structure Of Mtb Apo 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd)
pdb|3OKR|D Chain D, Structure Of Mtb Apo 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd)
Length = 231
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 57/172 (33%), Positives = 89/172 (51%), Gaps = 7/172 (4%)
Query: 43 SDIFEETKEKINVDLKFSLPGKERQDSVYSGLQEVDFNSE--LVCIHDSARPLVLSKDVQ 100
+D +E ++ + G R D+V L + +E V +HD+AR L V
Sbjct: 60 ADRTDEARQILGHRAMIVAGGSNRTDTVNLALTVLSGTAEPEFVLVHDAARALTPPALVA 119
Query: 101 KVLMDALRVG-AAVLGV-PAKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGF 158
+V ++ALR G AAV+ V P TIK ++ V+ T +R L +QTPQ DLL + +
Sbjct: 120 RV-VEALRDGYAAVVPVLPLSDTIKAVDANGVVLGTPERAGLRAVQTPQGFTTDLLLRSY 178
Query: 159 EL--VNREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLIAERILN 208
+ ++ E TDD S+VEH+ V + +G K+TT DLL+A+ I+
Sbjct: 179 QRGSLDLPAAEYTDDASLVEHIGGQVQVVDGDPLAFKITTKLDLLLAQAIVR 230
>pdb|3Q7U|A Chain A, Structure Of Mtb 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd) Complexed With Ctp
pdb|3Q7U|B Chain B, Structure Of Mtb 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd) Complexed With Ctp
pdb|3Q80|A Chain A, Structure Of Mtb 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd) Complexed With Cdp-Me
pdb|3Q80|B Chain B, Structure Of Mtb 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidyltransferase (Ispd) Complexed With Cdp-Me
Length = 231
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 57/172 (33%), Positives = 89/172 (51%), Gaps = 7/172 (4%)
Query: 43 SDIFEETKEKINVDLKFSLPGKERQDSVYSGLQEVDFNSE--LVCIHDSARPLVLSKDVQ 100
+D +E ++ + G R D+V L + +E V +HD+AR L V
Sbjct: 60 ADRTDEARQILGHRAMIVAGGSNRTDTVNLALTVLSGTAEPEFVLVHDAARALTPPALVA 119
Query: 101 KVLMDALRVG-AAVLGV-PAKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGF 158
+V ++ALR G AAV+ V P TIK ++ V+ T +R L +QTPQ DLL + +
Sbjct: 120 RV-VEALRDGYAAVVPVLPLSDTIKAVDANGVVLGTPERAGLRAVQTPQGFTTDLLLRSY 178
Query: 159 EL--VNREGLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLIAERILN 208
+ ++ E TDD S+VEH+ V + +G K+TT DLL+A+ I+
Sbjct: 179 QRGSLDLPAAEYTDDASLVEHIGGQVQVVDGDPLAFKITTKLDLLLAQAIVR 230
>pdb|3F1C|A Chain A, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase From Listeria Monocytogenes
pdb|3F1C|B Chain B, Crystal Structure Of 2-C-Methyl-D-Erythritol 4-Phosphate
Cytidylyltransferase From Listeria Monocytogenes
Length = 246
Score = 70.9 bits (172), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 57/222 (25%), Positives = 110/222 (49%), Gaps = 14/222 (6%)
Query: 1 MG-ANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKF 59
MG +MPKQ+LPL G+PI +++ F +I++ + + E+ +K D +
Sbjct: 17 MGNVSMPKQFLPLNGKPIIVHTVEKFILNTRFDKILISSPKEWMNHAEDNIKKYISDDRI 76
Query: 60 SL--PGKERQDSVYSGLQEVD-----FNSELVCIHDSARPLVLSKDVQKVLMDALRVGAA 112
+ G++R +++ +G++ V+ + +++ HD+ RP + + +++ + AL GA
Sbjct: 77 VVIEGGEDRNETIMNGIRFVEKTYGLTDDDIIVTHDAVRPFLTHRIIEENIDAALETGAV 136
Query: 113 VLGVPAKATIKEANSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEV-TDD 171
+ A TI E+++ + R +++ QTPQ + ++ + E ++ TD
Sbjct: 137 DTVIEALDTIVESSNHEVITDIPVRDHMYQGQTPQSFNMKKVFNHYQNLTPEKKQILTDA 196
Query: 172 VSIVEHLKHPVYITEGSYTNIKVTTPDDL-----LIAERILN 208
I V + +G NIK+TTP DL +I ERI N
Sbjct: 197 CKICLLAGDDVKLVKGEIFNIKITTPYDLKVANAIIQERIAN 238
>pdb|2VSH|A Chain A, Synthesis Of Cdp-Activated Ribitol For Teichoic Acid
Precursors In Streptococcus Pneumoniae
pdb|2VSH|B Chain B, Synthesis Of Cdp-Activated Ribitol For Teichoic Acid
Precursors In Streptococcus Pneumoniae
pdb|2VSI|A Chain A, Synthesis Of Cdp-Activated Ribitol For Teichoic Acid
Precursors In Streptococcus Pneumoniae
pdb|2VSI|B Chain B, Synthesis Of Cdp-Activated Ribitol For Teichoic Acid
Precursors In Streptococcus Pneumoniae
Length = 236
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 60/222 (27%), Positives = 105/222 (47%), Gaps = 19/222 (8%)
Query: 1 MG-ANMPKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEET--------KE 51
MG +N+PKQ+L L +PI +++ F +++IVV + E+ KE
Sbjct: 16 MGISNLPKQFLELGDRPILIHTIEKFVLEPSIEKIVVGVHGDWVSHAEDLVDKYLPLYKE 75
Query: 52 KINVDLKFSLPGKERQDSVYSGLQEVDFN-----SELVCIHDSARPLVLSKDVQKVLMDA 106
+I + + G +R S+ + ++ +D ++V HDS RP + + +Q + A
Sbjct: 76 RIII----TKGGADRNTSIKNIIEAIDAYRPLTPEDIVVTHDSVRPFITLRMIQDNIQLA 131
Query: 107 LRVGAAVLGVPAKATIKEANSESFVVRTLDRKTLWEMQTPQVIK-PDLLKKGFELVNREG 165
A V A TI E+ + F+ +R L++ QTPQ + D + L + E
Sbjct: 132 QNHDAVDTVVEAVDTIVESTNGQFITDIPNRAHLYQGQTPQTFRCKDFMDLYGSLSDEEK 191
Query: 166 LEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLIAERIL 207
+TD I V + +G Y+N+K+TT DL IA+ ++
Sbjct: 192 EILTDACKIFVIKGKDVALAKGEYSNLKITTVTDLKIAKSMI 233
>pdb|1W55|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter
Jejuni
pdb|1W57|A Chain A, Structure Of The Bifunctional Ispdf From Campylobacter
Jejuni Containing Zn
Length = 371
Score = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 60/195 (30%), Positives = 93/195 (47%), Gaps = 20/195 (10%)
Query: 7 KQYLPLLGQPIALYSFYTFSRMVEVKEIVVVC-DPSYSDIFEETKEKINVDLKFSLPGKE 65
KQ+L L P+ LY+ S K+IVV + +Y F + E F G
Sbjct: 23 KQFLRLGNDPLWLYATKNLSSFYPFKKIVVTSSNITYMKKFTKNYE-------FIEGGDT 75
Query: 66 RQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVPAKATIKEA 125
R +S+ L+ +D SE V + D AR LV SK++ L++ L + PA +K A
Sbjct: 76 RAESLKKALELID--SEFVMVSDVARVLV-SKNLFDRLIENLDKADCI--TPA---LKVA 127
Query: 126 NSESFVVRTLDRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLKHPVYIT 185
++ F L R+ + +QTPQ+ K LLKK + + LE TDD + + + ++
Sbjct: 128 DTTLFDNEALQREKIKLIQTPQISKTKLLKKALD----QNLEFTDDSTAIAAMGGKIWFV 183
Query: 186 EGSYTNIKVTTPDDL 200
EG K+T +DL
Sbjct: 184 EGEENARKLTFKEDL 198
>pdb|2GGO|A Chain A, Crystal Structure Of Glucose-1-Phosphate
Thymidylyltransferase From Sulfolobus Tokodaii
pdb|2GGQ|A Chain A, Complex Of Hypothetical Glucose-1-Phosphate
Thymidylyltransferase From Sulfolobus Tokodaii
Length = 401
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 36/174 (20%), Positives = 77/174 (44%), Gaps = 18/174 (10%)
Query: 6 PKQYLPLLGQPIALYSFYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFSLPGKE 65
PK ++P+L +P+ Y + R +++I V+ + FE+ ++I++ + K+
Sbjct: 22 PKAFVPILSKPLIEYQI-EYLRKCGIRDITVIVSSKNKEYFEKKLKEISI-----VTQKD 75
Query: 66 RQDSVYSGLQEVDFNSELVCIHDSARPLVLSKDVQKVLMDALRVGAAVLGVPAKATIKEA 125
+ + FN E + I+ L S + + + L+ A++GV K +
Sbjct: 76 DIKGTGAAILSAKFNDEALIIYGD---LFFSNEKEICNIITLKEN-AIIGV------KVS 125
Query: 126 NSESFVVRTLDRKTLWE--MQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEH 177
N + + V LD + ++ P++ +L+ G +N + D +SI E
Sbjct: 126 NPKDYGVLVLDNQNNLSKIIEKPEIPPSNLINAGIYKLNSDIFTYLDKISISER 179
>pdb|1BGP|A Chain A, Crystal Structure Of Barley Grain Peroxidase 1
Length = 309
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 136 DRKTLWEMQTPQVIKPDLLKKGFELVNREGLEVTDDVSIVEHLKHPV 182
DR+T+ +++TP V K +LVNREGL V+D + P+
Sbjct: 219 DRRTVLDVRTPNVFD---NKYYIDLVNREGLFVSDQDLFTNAITRPI 262
>pdb|2VR2|A Chain A, Human Dihydropyrimidinase
Length = 541
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 50/137 (36%), Gaps = 16/137 (11%)
Query: 22 FYTFSRMVEVKEIVVVCDPSYSDIFEETKEKINVDLKFSLPGKERQDSVYSGLQEVDFNS 81
+ FSR E+ I V D+ E +K+ L + G E + E +
Sbjct: 198 YEAFSRCKEIGAIAQV-HAENGDLIAEGAKKM---LALGITGPEGHELCRPEAVEAEATL 253
Query: 82 ELVCIHDSAR-PL----VLSKDVQKVLMDALRVGAAVLGVPAKATIKEANSESFVVRTLD 136
+ I + PL V+SK KV+ DA R G V G P A++ + +
Sbjct: 254 RAITIASAVNCPLYIVHVMSKSAAKVIADARRDGKVVYGEPIAASLGTDGTHYW------ 307
Query: 137 RKTLWEMQTPQVIKPDL 153
W V+ P L
Sbjct: 308 -NKEWHHAAHHVMGPPL 323
>pdb|2ZW9|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZW9|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
Length = 695
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 168 VTDDVSIVEHLKHPVYITEGSYTNIKVTTPDDLLI 202
T+ +++++ L+HP++ GS IK TP LLI
Sbjct: 580 ATEPITVIKKLQHPLFQRYGS--QIKYITPRKLLI 612
>pdb|3CHX|A Chain A, Crystal Structure Of Methylosinus Trichosporium Ob3b
Particulate Methane Monooxygenase (Pmmo)
pdb|3CHX|E Chain E, Crystal Structure Of Methylosinus Trichosporium Ob3b
Particulate Methane Monooxygenase (Pmmo)
pdb|3CHX|I Chain I, Crystal Structure Of Methylosinus Trichosporium Ob3b
Particulate Methane Monooxygenase (Pmmo)
Length = 392
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 54/132 (40%), Gaps = 19/132 (14%)
Query: 96 SKDVQKVLMDALRVGAAVLGVPAKAT-IKEANSESFVVRTLDRKTLWEMQTPQVIKPDLL 154
KD +++ D RVGA VL V AT I A + S RT+ + + +I+
Sbjct: 190 GKDEEQIGDDDRRVGAIVLAVTILATIIGYAVTNSTFPRTIPLQAGLQKPLTPIIEEGTA 249
Query: 155 KKGFELVNRE---------GLEVTDDVSIVEHLKHPVYITEGSYTNIKVTTPD------- 198
G +V E G E+T V + P+ + E + ++ PD
Sbjct: 250 GVGPHVVTAELKGGVYKVPGRELTIQVKVTNKTDEPLKLGEYTAAGLRFLNPDVFTTKPE 309
Query: 199 --DLLIAERILN 208
D L+A+R L+
Sbjct: 310 FPDYLLADRGLS 321
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
0.316 0.134 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,018,447
Number of Sequences: 62578
Number of extensions: 238394
Number of successful extensions: 952
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 902
Number of HSP's gapped (non-prelim): 34
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)