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= 030876
(170 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EK5|A Chain A, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|B Chain B, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|C Chain C, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|D Chain D, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|E Chain E, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|F Chain F, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|A Chain A, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|B Chain B, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|C Chain C, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|D Chain D, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|E Chain E, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|F Chain F, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
Length = 243
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 43/88 (48%), Positives = 59/88 (67%), Gaps = 3/88 (3%)
Query: 81 NGMSKPSYKWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGN 140
N MS+ SY+ R+LLK+SGEAL GD IDPK+ +A EV + G +VA+V+GGGN
Sbjct: 2 NAMSELSYR--RILLKLSGEALMGDGDYGIDPKVINRLAHEVIEAQQAGAQVALVIGGGN 59
Query: 141 IFRGASAAGNSGLDRSSADYIGYFLLIL 168
IFRGA A SG+DR + D++G ++
Sbjct: 60 IFRGAGLAA-SGMDRVTGDHMGMLATVI 86
>pdb|1Z9D|A Chain A, Crystal Structure Of A Putative Uridylate Kinase
(Ump-Kinase) From Streptococcus Pyogenes
pdb|1Z9D|B Chain B, Crystal Structure Of A Putative Uridylate Kinase
(Ump-Kinase) From Streptococcus Pyogenes
pdb|1Z9D|C Chain C, Crystal Structure Of A Putative Uridylate Kinase
(Ump-Kinase) From Streptococcus Pyogenes
Length = 252
Score = 77.0 bits (188), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 38/74 (51%), Positives = 54/74 (72%), Gaps = 1/74 (1%)
Query: 89 KWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFRGASAA 148
K+QR+L+K+SGEALAG+ ID AIA+E+A V G+++A+V+GGGN++RG AA
Sbjct: 6 KYQRILIKLSGEALAGEKGVGIDIPTVQAIAKEIAEVHVSGVQIALVIGGGNLWRGEPAA 65
Query: 149 GNSGLDRSSADYIG 162
++G DR ADY G
Sbjct: 66 -DAGXDRVQADYTG 78
>pdb|2A1F|A Chain A, Crystal Structure Of Uridylate Kinase
pdb|2A1F|B Chain B, Crystal Structure Of Uridylate Kinase
pdb|2A1F|C Chain C, Crystal Structure Of Uridylate Kinase
pdb|2A1F|D Chain D, Crystal Structure Of Uridylate Kinase
pdb|2A1F|E Chain E, Crystal Structure Of Uridylate Kinase
pdb|2A1F|F Chain F, Crystal Structure Of Uridylate Kinase
Length = 247
Score = 74.7 bits (182), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 37/86 (43%), Positives = 58/86 (67%), Gaps = 3/86 (3%)
Query: 83 MSKPSYKWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIF 142
+S+P YK R+LLK+SGEAL G+ IDP I +A E+ + +G+EV++V+GGGN+F
Sbjct: 3 LSQPIYK--RILLKLSGEALQGEDGLGIDPAILDRMAVEIKELVEMGVEVSVVLGGGNLF 60
Query: 143 RGASAAGNSGLDRSSADYIGYFLLIL 168
RGA A +G++R D++G ++
Sbjct: 61 RGAKLA-KAGMNRVVGDHMGMLATVM 85
>pdb|2BNE|A Chain A, The Structure Of E. Coli Ump Kinase In Complex With Ump
pdb|2BNE|B Chain B, The Structure Of E. Coli Ump Kinase In Complex With Ump
pdb|2V4Y|A Chain A, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|B Chain B, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|C Chain C, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|D Chain D, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|E Chain E, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|F Chain F, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
Length = 241
Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 37/85 (43%), Positives = 55/85 (64%), Gaps = 3/85 (3%)
Query: 84 SKPSYKWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFR 143
+KP YK R+LLK+SGEAL G ID I +A+E+ + LGI+V +V+GGGN+FR
Sbjct: 5 AKPVYK--RILLKLSGEALQGTEGFGIDASILDRMAQEIKELVELGIQVGVVIGGGNLFR 62
Query: 144 GASAAGNSGLDRSSADYIGYFLLIL 168
GA A +G++R D++G ++
Sbjct: 63 GAGLA-KAGMNRVVGDHMGMLATVM 86
>pdb|2BND|A Chain A, The Structure Of E.Coli Ump Kinase In Complex With Udp
pdb|2BND|B Chain B, The Structure Of E.Coli Ump Kinase In Complex With Udp
Length = 241
Score = 71.2 bits (173), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 37/85 (43%), Positives = 55/85 (64%), Gaps = 3/85 (3%)
Query: 84 SKPSYKWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFR 143
+KP YK R+LLK+SGEAL G ID I +A+E+ + LGI+V +V+GGGN+FR
Sbjct: 5 AKPVYK--RILLKLSGEALQGTEGFGIDASILDRMAQEIKELVELGIQVGVVIGGGNLFR 62
Query: 144 GASAAGNSGLDRSSADYIGYFLLIL 168
GA A +G++R D++G ++
Sbjct: 63 GAGLA-KAGMNRVVGDHMGMLATVM 86
>pdb|3NWY|A Chain A, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|B Chain B, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|C Chain C, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|D Chain D, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|E Chain E, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|F Chain F, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
Length = 281
Score = 67.8 bits (164), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 31/75 (41%), Positives = 48/75 (64%), Gaps = 2/75 (2%)
Query: 90 WQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFRGASAAG 149
+ RVLLK+ GE G +DP + +AR++A V R G+++A+V+GGGN FRGA
Sbjct: 50 YSRVLLKLGGEMFGGGQV-GLDPDVVAQVARQIADVVRGGVQIAVVIGGGNFFRGAQLQ- 107
Query: 150 NSGLDRSSADYIGYF 164
G++R+ +DY+G
Sbjct: 108 QLGMERTRSDYMGML 122
>pdb|2BNF|A Chain A, The Structure Of E. Coli Ump Kinase In Complex With Utp
pdb|2BNF|B Chain B, The Structure Of E. Coli Ump Kinase In Complex With Utp
Length = 241
Score = 67.0 bits (162), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 37/79 (46%), Positives = 50/79 (63%), Gaps = 3/79 (3%)
Query: 84 SKPSYKWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFR 143
+KP YK R+LLK+SGEAL G ID I A+E+ + LGI+V +V+GGGN+FR
Sbjct: 5 AKPVYK--RILLKLSGEALQGTEGFGIDASILDRXAQEIKELVELGIQVGVVIGGGNLFR 62
Query: 144 GASAAGNSGLDRSSADYIG 162
GA A +G +R D+ G
Sbjct: 63 GAGLA-KAGXNRVVGDHXG 80
>pdb|2JJX|A Chain A, The Crystal Structure Of Ump Kinase From Bacillus
Anthracis (Ba1797)
pdb|2JJX|B Chain B, The Crystal Structure Of Ump Kinase From Bacillus
Anthracis (Ba1797)
pdb|2JJX|C Chain C, The Crystal Structure Of Ump Kinase From Bacillus
Anthracis (Ba1797)
Length = 255
Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 37/73 (50%), Positives = 48/73 (65%), Gaps = 1/73 (1%)
Query: 90 WQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFRGASAAG 149
++RVL+K+SG ALA + + K IA E+ S+ LGIEV+IV+GGGNIFRG A
Sbjct: 12 YKRVLIKLSGGALADQTGNSFNSKRLEHIANEILSIVDLGIEVSIVIGGGNIFRG-HLAE 70
Query: 150 NSGLDRSSADYIG 162
G+DR AD IG
Sbjct: 71 EWGIDRVEADNIG 83
>pdb|4A7W|A Chain A, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7W|B Chain B, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|A Chain A, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|B Chain B, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|C Chain C, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|D Chain D, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|E Chain E, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|F Chain F, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
Length = 240
Score = 46.2 bits (108), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 39/80 (48%), Positives = 52/80 (65%)
Query: 89 KWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFRGASAA 148
K +RVL+K SGEALAGD+ ID + IA+E+ S+ IEV IV+GGGNI RG SAA
Sbjct: 6 KNKRVLVKFSGEALAGDNQFGIDIHVLDHIAKEIKSLVENDIEVGIVIGGGNIIRGVSAA 65
Query: 149 GNSGLDRSSADYIGYFLLIL 168
+ R+S DY+G ++
Sbjct: 66 QGGIIRRTSGDYMGMLATVI 85
>pdb|1YBD|A Chain A, Crystal Structure Analysis Of Uridylate Kinase From
Neisseria Meningitidis
pdb|1YBD|B Chain B, Crystal Structure Analysis Of Uridylate Kinase From
Neisseria Meningitidis
pdb|1YBD|C Chain C, Crystal Structure Analysis Of Uridylate Kinase From
Neisseria Meningitidis
Length = 239
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 37/74 (50%), Positives = 49/74 (66%), Gaps = 1/74 (1%)
Query: 89 KWQRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFRGASAA 148
K++RVLLK+SGE+L G I+ + E+A V + G++V IVVGGGNIFRG SA
Sbjct: 6 KYKRVLLKLSGESLXGSDPFGINHDTIVQTVGEIAEVVKXGVQVGIVVGGGNIFRGVSAQ 65
Query: 149 GNSGLDRSSADYIG 162
S DR++ADY G
Sbjct: 66 AGS-XDRATADYXG 78
>pdb|2VA1|A Chain A, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|B Chain B, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|C Chain C, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|D Chain D, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|E Chain E, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|F Chain F, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
Length = 256
Score = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 47/78 (60%), Gaps = 2/78 (2%)
Query: 91 QRVLLKVSGEALAGDHTQNIDPKITMAIAREVASVTRLGIEVAIVVGGGNIFRGASAAGN 150
QR+++K+SG L + + ID +A ++ +++ I V+IV+GGGNI+RG S A
Sbjct: 25 QRIVIKISGACLKQNDSSIIDFIKINDLAEQIEKISKKYI-VSIVLGGGNIWRG-SIAKE 82
Query: 151 SGLDRSSADYIGYFLLIL 168
+DR+ AD +G I+
Sbjct: 83 LDMDRNLADNMGMMATII 100
>pdb|2BP7|B Chain B, New Crystal Form Of The Pseudomonas Putida Branched-Chain
Dehydrogenase (E1)
pdb|2BP7|D Chain D, New Crystal Form Of The Pseudomonas Putida Branched-Chain
Dehydrogenase (E1)
pdb|2BP7|F Chain F, New Crystal Form Of The Pseudomonas Putida Branched-Chain
Dehydrogenase (E1)
pdb|2BP7|H Chain H, New Crystal Form Of The Pseudomonas Putida Branched-Chain
Dehydrogenase (E1)
Length = 339
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 18/104 (17%)
Query: 56 SAQNPTNGRQPQMSSMSPFGVTLNDNGMSKPSYKWQRVLLKVSGEALAGDHTQNIDPKIT 115
+P +P+ PF D +P W + H + P
Sbjct: 165 ECDDPVIFLEPKRLYNGPF-----DGHHDRPVTPWSK-------------HPHSAVPDGY 206
Query: 116 MAIAREVASVTRLGIEVAIVVGGGNIFRGASAAGNSGLDRSSAD 159
+ + A++TR G +V+++ G ++ AA SG+D D
Sbjct: 207 YTVPLDKAAITRPGNDVSVLTYGTTVYVAQVAAEESGVDAEVID 250
>pdb|1QS0|B Chain B, Crystal Structure Of Pseudomonas Putida 2-Oxoisovalerate
Dehydrogenase (Branched-Chain Alpha-Keto Acid
Dehydrogenase, E1b)
Length = 338
Score = 27.3 bits (59), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 18/104 (17%)
Query: 56 SAQNPTNGRQPQMSSMSPFGVTLNDNGMSKPSYKWQRVLLKVSGEALAGDHTQNIDPKIT 115
+P +P+ PF D +P W + H + P
Sbjct: 164 ECDDPVIFLEPKRLYNGPF-----DGHHDRPVTPWSK-------------HPHSAVPDGY 205
Query: 116 MAIAREVASVTRLGIEVAIVVGGGNIFRGASAAGNSGLDRSSAD 159
+ + A++TR G +V+++ G ++ AA SG+D D
Sbjct: 206 YTVPLDKAAITRPGNDVSVLTYGTTVYVAQVAAEESGVDAEVID 249
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
0.317 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,078,158
Number of Sequences: 62578
Number of extensions: 146286
Number of successful extensions: 391
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 369
Number of HSP's gapped (non-prelim): 17
length of query: 170
length of database: 14,973,337
effective HSP length: 92
effective length of query: 78
effective length of database: 9,216,161
effective search space: 718860558
effective search space used: 718860558
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)