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= 016716
(384 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WW4|A Chain A, A Triclinic Crystal Form Of E. Coli 4-Diphosphocytidyl-2c-
Methyl-D-Erythritol Kinase
pdb|2WW4|B Chain B, A Triclinic Crystal Form Of E. Coli 4-Diphosphocytidyl-2c-
Methyl-D-Erythritol Kinase
Length = 283
Score = 88.6 bits (218), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 63/197 (31%), Positives = 93/197 (47%), Gaps = 19/197 (9%)
Query: 78 SPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRD----RLSTNVPGIP 133
SP K+N FL IT +R DG+H L +LF + GDTI L RD RL T V G+
Sbjct: 7 SPAKLNLFLYITGQRADGYHTLQTLFQFLDYGDTISIEL-----RDDGDIRLLTPVEGVE 61
Query: 134 VDDSNLIIKALNLYRK------KTESDNFFWIHLDKKVPXXXXXXXXXXXXXTALWAANQ 187
+D NLI++A L K + + + I +DK++P T L A N
Sbjct: 62 HED-NLIVRAARLLMKTAADSGRLPTGSGANISIDKRLPMGGGLGGGSSNAATVLVALNH 120
Query: 188 FNGCVATEKELQEWSSEIGSDIPFFFSHGAAYCTGRGEVVQDIPPPIPLDVPMVLIKPRE 247
C + EL E +G+D+P F AA+ G GE++ + PP + ++ P
Sbjct: 121 LWQCGLSMDELAEMGLTLGADVPVFVRGHAAFAEGVGEILTPVDPP---EKWYLVAHPGV 177
Query: 248 ACPTAEVYKHLRLDQTT 264
+ PT ++K L + T
Sbjct: 178 SIPTPVIFKDPELPRNT 194
>pdb|1OJ4|A Chain A, Ternary Complex Of
4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase
pdb|1OJ4|B Chain B, Ternary Complex Of
4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase
Length = 283
Score = 88.2 bits (217), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 64/197 (32%), Positives = 94/197 (47%), Gaps = 19/197 (9%)
Query: 78 SPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRD----RLSTNVPGIP 133
SP K+N FL IT +R DG+H L +LF + GDTI L RD RL T V G+
Sbjct: 7 SPAKLNLFLYITGQRADGYHTLQTLFQFLDYGDTISIEL-----RDDGDIRLLTPVEGVE 61
Query: 134 VDDSNLIIKALNLYRK------KTESDNFFWIHLDKKVPXXXXXXXXXXXXXTALWAANQ 187
+D NLI++A L K + + + I +DK++P T L A N
Sbjct: 62 HED-NLIVRAARLLXKTAADSGRLPTGSGANISIDKRLPXGGGLGGGSSNAATVLVALNH 120
Query: 188 FNGCVATEKELQEWSSEIGSDIPFFFSHGAAYCTGRGEVVQDIPPPIPLDVPMVLIKPRE 247
C + EL E +G+D+P F AA+ G GE++ + PP + ++ P
Sbjct: 121 LWQCGLSXDELAEXGLTLGADVPVFVRGHAAFAEGVGEILTPVDPP---EKWYLVAHPGV 177
Query: 248 ACPTAEVYKHLRLDQTT 264
+ PT ++K L + T
Sbjct: 178 SIPTPVIFKDPELPRNT 194
>pdb|4DXL|A Chain A, Crystal Structure Of Ispe
(4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase) From
Mycobacterium Abscessus, Bound To Cmp And Atp
pdb|4ED4|A Chain A, Crystal Structure Of Ispe
(4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase) From
Mycobacterium Abcessus, Bound To Atp
pdb|4EMD|A Chain A, Crystal Structure Of Ispe
(4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase) From
Mycobacterium Abcessus, Bound To Cmp And So4
Length = 318
Score = 85.5 bits (210), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 44/167 (26%), Positives = 79/167 (47%)
Query: 59 NKLADEVDREAPLSRLTLFSPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSP 118
+++ V P +T+ +P K+N +L + + R+DG+H+L ++FH +SL D + +
Sbjct: 3 GSMSETVSDWVPTGAVTVRAPGKVNLYLAVGDLRDDGYHELTTVFHAVSLADDVTVRDAD 62
Query: 119 LKSRDRLSTNVPGIPVDDSNLIIKALNLYRKKTESDNFFWIHLDKKVPXXXXXXXXXXXX 178
+ S D + +P D+ NL +A L+ I ++K +P
Sbjct: 63 VLSIDVVGQGEGTVPTDERNLAWQAAELFADHVGRAPDVSIFINKDIPVAGGMAGGSADA 122
Query: 179 XTALWAANQFNGCVATEKELQEWSSEIGSDIPFFFSHGAAYCTGRGE 225
L A N+ ++L ++++GSD+PF G A TGRGE
Sbjct: 123 AAVLVAMNELWHAGVPRRDLHHLAAQLGSDVPFALHGGTALGTGRGE 169
>pdb|1UEK|A Chain A, Crystal Structure Of 4-(Cytidine
5'-Diphospho)-2c-Methyl-D- Erythritol Kinase
Length = 275
Score = 85.5 bits (210), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 66/236 (27%), Positives = 104/236 (44%), Gaps = 16/236 (6%)
Query: 77 FSPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRDRLSTNVPGIPVDD 136
+P K+N L + +REDG+H+L +LF SL D + + P+ S P
Sbjct: 4 LAPAKVNLGLSVRFRREDGYHELHTLFAPFSLAD--RLVVEPVSSGLHFQG-----PYGR 56
Query: 137 SNLIIKALNLYRKKTESDNFFWIHLDKKVPXXXXXXXXXXXXXTALWAANQFNGCVATEK 196
NL +A +LY + I L+K++P L A E
Sbjct: 57 ENLAYRAASLYLEAAGQPGGVRILLEKRIPEGAGLGGGSSDAAQVLLA---LQALYPAEV 113
Query: 197 ELQEWSSEIGSDIPFFFSHGAAYCTGRGEVVQDIPPPIPLDVPMVLIKPREACPTAEVYK 256
+L + +G+D+PFF A G GE ++ + P VP V+ P PT VY+
Sbjct: 114 DLFALARTLGADVPFFLLGRGAEARGVGERLKPLALP---PVPAVVFFPGLRVPTPLVYR 170
Query: 257 HLRLDQTTKVDPL-TLLEQISRNGLSQDVCINDLEAPAFQVLPSLKRLKQRIIAAG 311
+R + P+ +LE ++R + N LE PAF++ P LK ++ R+ A G
Sbjct: 171 AVRPEDFGPDLPVEAILEALARG--EEPPYWNSLEGPAFRLFPELKEVRGRMRALG 224
>pdb|3PYD|A Chain A, Crystal Structure Of
4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase (Ispe)
From Mycobacterium Tuberculosis
pdb|3PYE|A Chain A, Mycobacterium Tuberculosis
4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase (Ispe)
In Complex With Cdpme
pdb|3PYF|A Chain A, Mycobacterium Tuberculosis
4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase (Ispe)
In Complex With Amp-Pnp
pdb|3PYG|A Chain A, Mycobacterium Tuberculosis
4-Diphosphocytidyl-2-C-Methyl-D-Erythritol Kinase (Ispe)
In Complex With Adp
Length = 306
Score = 84.0 bits (206), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 44/156 (28%), Positives = 74/156 (47%)
Query: 70 PLSRLTLFSPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRDRLSTNV 129
P +T+ P K+N +L + ++REDG+H+L ++FH +SL D + + + S + +
Sbjct: 2 PTGSVTVRVPGKVNLYLAVGDRREDGYHELTTVFHAVSLVDEVTVRNADVLSLELVGEGA 61
Query: 130 PGIPVDDSNLIIKALNLYRKKTESDNFFWIHLDKKVPXXXXXXXXXXXXXTALWAANQFN 189
+P D+ NL +A L + I +DK +P L A N
Sbjct: 62 DQLPTDERNLAWQAAELMAEHVGRAPDVSIMIDKSIPVAGGMAGGSADAAAVLVAMNSLW 121
Query: 190 GCVATEKELQEWSSEIGSDIPFFFSHGAAYCTGRGE 225
++L+ ++ +GSD+PF G A TGRGE
Sbjct: 122 ELNVPRRDLRMLAARLGSDVPFALHGGTALGTGRGE 157
>pdb|2V2Q|A Chain A, Ispe In Complex With Ligand
pdb|2V2Q|B Chain B, Ispe In Complex With Ligand
pdb|2V2V|A Chain A, Ispe In Complex With Ligand
pdb|2V2V|B Chain B, Ispe In Complex With Ligand
pdb|2V2Z|A Chain A, Ispe In Complex With Adp And Cdpme
pdb|2V2Z|B Chain B, Ispe In Complex With Adp And Cdpme
pdb|2V34|A Chain A, Ispe In Complex With Cytidine And Ligand
pdb|2V34|B Chain B, Ispe In Complex With Cytidine And Ligand
pdb|2V8P|A Chain A, Ispe In Complex With Adp And Cdp
pdb|2V8P|B Chain B, Ispe In Complex With Adp And Cdp
pdb|2VF3|A Chain A, Aquifex Aeolicus Ispe In Complex With Ligand
pdb|2VF3|B Chain B, Aquifex Aeolicus Ispe In Complex With Ligand
Length = 271
Score = 77.0 bits (188), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 86/186 (46%), Gaps = 8/186 (4%)
Query: 74 LTLFSPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRDRLSTNVPGIP 133
+ + SP KIN L + + G+H++ +L+ I D I L R+ TN+ GIP
Sbjct: 5 IKVLSPAKINLGLWVLGRLPSGYHEILTLYQEIPFYDEIYIREGVL----RVETNI-GIP 59
Query: 134 VDDSNLIIKALNLYRKKTESDNFFWIHLDKKVPXXXXXXXXXXXXXTALWAANQFNGCVA 193
+ NL+ K L + + T + + I + K +P L N+ G
Sbjct: 60 -QEENLVYKGLREFERITGIEINYSIFIQKNIPPGAGLGGGSSNLAVVLKKVNELLGSPL 118
Query: 194 TEKELQEWSSEIGSDIPFFFSHGAAYCTGRGEVVQDIPPPIPLDVPMVLIKPREACPTAE 253
+E+EL+E I +D PFF +A G+GEV++ + I + +V+ P+ + T
Sbjct: 119 SEEELRELVGSISADAPFFLLGKSAIGRGKGEVLEPVETEISGKITLVI--PQVSSSTGR 176
Query: 254 VYKHLR 259
VY LR
Sbjct: 177 VYSSLR 182
>pdb|1XF1|A Chain A, Structure Of C5a Peptidase- A Key Virulence Factor From
Streptococcus
pdb|1XF1|B Chain B, Structure Of C5a Peptidase- A Key Virulence Factor From
Streptococcus
Length = 926
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 52 YDPDER-----RNKLADEVDREAPLSRLTLFSPCKINAFLRIT-NKREDGFHDLASLFHV 105
Y PD++ R K AD+ D+E P+ F P K + +ED F D+ +
Sbjct: 226 YSPDKQLTETVRVKTADQQDKEXPVLSTNRFEPNKAYDYAYANRGTKEDDFKDVKGKIAL 285
Query: 106 ISLGD 110
I GD
Sbjct: 286 IERGD 290
>pdb|1MUK|A Chain A, Reovirus Lambda3 Native Structure
pdb|1MWH|A Chain A, Reovirus Polymerase Lambda3 Bound To Mrna Cap Analog
pdb|1N1H|A Chain A, Initiation Complex Of Polymerase Lambda3 From Reovirus
pdb|1N35|A Chain A, Lambda3 Elongation Complex With Four Phosphodiester Bond
Formed
pdb|1N38|A Chain A, Reovirus Polymerase Lambda3 Elongation Complex With One
Phosphodiester Bond Formed
pdb|1UON|A Chain A, Reovirus Polymerase Lambda-3 Localized By Electron
Cryomicroscopy Of Virions At 7.6-a Resolution
Length = 1267
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 74 LTLFSPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRDRLSTNVPGI- 132
LT F P I + IT++ D F D A F + + D K +L + D +P
Sbjct: 6 LTQFGPF-IESISGITDQSNDVFEDAAKAFSMFTRSDVYK-ALDEIPFSDDAMLPIPPTI 63
Query: 133 ---PVDDSNLIIKALNLYRKKT 151
P DS I ALN R+KT
Sbjct: 64 YTKPSHDSYYYIDALNRVRRKT 85
>pdb|2CSE|1 Chain 1, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
Electron And Image Reconstruction Of The Virion At 7.0-A
Resolution
Length = 1267
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 36/82 (43%), Gaps = 6/82 (7%)
Query: 74 LTLFSPCKINAFLRITNKREDGFHDLASLFHVISLGDTIKFSLSPLKSRDRLSTNVPGI- 132
LT F P I + IT++ D F D A F + + D K +L + D +P
Sbjct: 6 LTQFRPF-IESISGITDQSNDVFEDAAKAFSMFTRSDVYK-ALDEIPFSDDAMLPIPPTI 63
Query: 133 ---PVDDSNLIIKALNLYRKKT 151
P DS I ALN R+KT
Sbjct: 64 YTKPSHDSYYYIDALNRVRRKT 85
>pdb|3IP3|A Chain A, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|B Chain B, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|C Chain C, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|D Chain D, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|E Chain E, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|F Chain F, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|G Chain G, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
pdb|3IP3|H Chain H, Structure Of Putative Oxidoreductase (Tm_0425) From
Thermotoga Maritima
Length = 337
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 31/62 (50%)
Query: 105 VISLGDTIKFSLSPLKSRDRLSTNVPGIPVDDSNLIIKALNLYRKKTESDNFFWIHLDKK 164
VI +++L L ++ PG+P +D + + KA++ K + N +W L+K+
Sbjct: 7 VIGSSGHFRYALEGLDEECSITGIAPGVPEEDLSKLEKAISEXNIKPKKYNNWWEXLEKE 66
Query: 165 VP 166
P
Sbjct: 67 KP 68
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 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,641,013
Number of Sequences: 62578
Number of extensions: 404930
Number of successful extensions: 829
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 815
Number of HSP's gapped (non-prelim): 11
length of query: 384
length of database: 14,973,337
effective HSP length: 101
effective length of query: 283
effective length of database: 8,652,959
effective search space: 2448787397
effective search space used: 2448787397
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)