BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
Query= gi|15644957|ref|NP_207127.1| NH(3)-dependent NAD+
synthetase (nadE) [Helicobacter pylori 26695]
(260 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1KQP|A Chain A, Nh3-Dependent Nad+ Synthetase From Baci... 80 2e-16
pdb|1IH8|A Chain A, Nh3-Dependent Nad+ Synthetase From Baci... 80 2e-16
pdb|1GPM|A Chain A, Escherichia Coli Gmp Synthetase Complex... 32 0.056
pdb|1G0U|I Chain I, A Gated Channel Into The Proteasome Cor... 32 0.096
pdb|1RYP|J Chain J, Crystal Structure Of The 20s Proteasome... 32 0.096
pdb|1CT9|A Chain A, Crystal Structure Of Asparagine Synthet... 27 2.4
pdb|1J5S|A Chain A, Crystal Structure Of Uronate Isomerase ... 27 3.1
pdb|1HSJ|A Chain A, Sarr Mbp Fusion Structure >gi|14488507|... 25 6.9
pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular ... 25 6.9
pdb|2GBP| D-GalactoseD-Glucose Binding Protein (GGBP) >gi... 25 9.0
pdb|1C7N|A Chain A, Crystal Structure Of Cystalysin From Tr... 25 9.0
pdb|3GBP| Galactose-Binding Protein Complex With Glucose 25 9.0
pdb|1EJ6|C Chain C, Reovirus Core >gi|9955258|pdb|1EJ6|B Ch... 25 9.0
pdb|1GCA| GlucoseGALACTOSE-Binding Protein Complex With G... 25 9.0
>pdb|1KQP|A Chain A, Nh3-Dependent Nad+ Synthetase From Bacillus Subtilis At 1
A Resolution
pdb|1KQP|B Chain B, Nh3-Dependent Nad+ Synthetase From Bacillus Subtilis At 1
A Resolution
Length = 271
Score = 80.1 bits (196), Expect = 2e-16
Identities = 69/215 (32%), Positives = 104/215 (48%), Gaps = 19/215 (8%)
Query: 14 DFLEKEVQKRGFKKVVYGLSGGLDSAVVGVLCQ----KVFKENAHALLMPSSVSMP---E 66
+FL++ V+K G K V G+SGG DS + G L Q + +E A + +V +P +
Sbjct: 27 NFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQLAVESIREEGGDAQFI--AVRLPHGTQ 84
Query: 67 NKTDALNLCEKFSIPYT--EYSIAPYDAIFSSHFKDAS---LT--RKGNFCARLRMAFLY 119
D L KF P ++ I + FS ++ + LT KGN AR RM Y
Sbjct: 85 QDEDDAQLALKFIKPDKSWKFDIKSTVSAFSDQYQQETGDQLTDFNKGNVKARTRMIAQY 144
Query: 120 DYSLKSDSLVIGTSNKSERMLGYGTLFGDLACAINPIGELFKTEVYELARRLNIPKKILN 179
+ LV+GT + +E + G+ T +GD + P+ L K + L + L P+++
Sbjct: 145 AIGGQEGLLVLGTDHAAEAVTGFFTKYGDGGADLLPLTGLTKRQGRTLLKELGAPERLYL 204
Query: 180 KPPSADLF---VGQSDEKDLGYPYSVIDPLLKDIE 211
K P+ADL QSDE +LG Y ID L+ E
Sbjct: 205 KEPTADLLDEKPQQSDETELGISYDEIDDYLEGKE 239
>pdb|1IH8|A Chain A, Nh3-Dependent Nad+ Synthetase From Bacillus Subtilis
Complexed With Amp-Cpp And Mg2+ Ions.
pdb|2NSY|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis In Complex With Nad-Adenylate
pdb|2NSY|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis In Complex With Nad-Adenylate
pdb|1NSY|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis
pdb|1NSY|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis
pdb|1EE1|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis Complexed With One Molecule Atp, Two
Molecules Deamido-Nad+ And One Mg2+ Ion
pdb|1FYD|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis Complexed With One Molecule Amp, One
Pyrophosphate Ion And One Mg2+ Ion
pdb|1IH8|B Chain B, Nh3-Dependent Nad+ Synthetase From Bacillus Subtilis
Complexed With Amp-Cpp And Mg2+ Ions.
pdb|1EE1|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis Complexed With One Molecule Atp, Two
Molecules Deamido-Nad+ And One Mg2+ Ion
pdb|1FYD|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis Complexed With One Molecule Amp, One
Pyrophosphate Ion And One Mg2+ Ion
pdb|1IFX|A Chain A, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis Complexed With Two Molecules
Deamido-Nad
pdb|1IFX|B Chain B, Crystal Structure Of Nh3-Dependent Nad+ Synthetase From
Bacillus Subtilis Complexed With Two Molecules
Deamido-Nad
Length = 271
Score = 80.1 bits (196), Expect = 2e-16
Identities = 69/215 (32%), Positives = 104/215 (48%), Gaps = 19/215 (8%)
Query: 14 DFLEKEVQKRGFKKVVYGLSGGLDSAVVGVLCQ----KVFKENAHALLMPSSVSMP---E 66
+FL++ V+K G K V G+SGG DS + G L Q + +E A + +V +P +
Sbjct: 27 NFLKQYVKKTGAKGFVLGISGGQDSTLAGRLAQLAVESIREEGGDAQFI--AVRLPHGTQ 84
Query: 67 NKTDALNLCEKFSIPYT--EYSIAPYDAIFSSHFKDAS---LT--RKGNFCARLRMAFLY 119
D L KF P ++ I + FS ++ + LT KGN AR RM Y
Sbjct: 85 QDEDDAQLALKFIKPDKSWKFDIKSTVSAFSDQYQQETGDQLTDFNKGNVKARTRMIAQY 144
Query: 120 DYSLKSDSLVIGTSNKSERMLGYGTLFGDLACAINPIGELFKTEVYELARRLNIPKKILN 179
+ LV+GT + +E + G+ T +GD + P+ L K + L + L P+++
Sbjct: 145 AIGGQEGLLVLGTDHAAEAVTGFFTKYGDGGADLLPLTGLTKRQGRTLLKELGAPERLYL 204
Query: 180 KPPSADLF---VGQSDEKDLGYPYSVIDPLLKDIE 211
K P+ADL QSDE +LG Y ID L+ E
Sbjct: 205 KEPTADLLDEKPQQSDETELGISYDEIDDYLEGKE 239
>pdb|1GPM|A Chain A, Escherichia Coli Gmp Synthetase Complexed With Amp And
Pyrophosphate
pdb|1GPM|C Chain C, Escherichia Coli Gmp Synthetase Complexed With Amp And
Pyrophosphate
pdb|1GPM|B Chain B, Escherichia Coli Gmp Synthetase Complexed With Amp And
Pyrophosphate
pdb|1GPM|D Chain D, Escherichia Coli Gmp Synthetase Complexed With Amp And
Pyrophosphate
Length = 525
Score = 32.3 bits (72), Expect = 0.056
Identities = 36/188 (19%), Positives = 71/188 (37%), Gaps = 40/188 (21%)
Query: 24 GFKKVVYGLSGGLDSAVVGVLCQKVFKENAHALLMPSSVSMPENKTDALNLC-EKFSIPY 82
G KV+ GLSGG+DS+V +L + +N + + + + L++ + F +
Sbjct: 226 GDDKVILGLSGGVDSSVTAMLLHRAIGKNLTCVFVDNGLLRLNEAEQVLDMFGDHFGLNI 285
Query: 83 TEYSIAPYDAIFSSHFKDASLTRKGNFCARLRMAFLYDYSLKSDSLVIGTSNKSERMLGY 142
+ D S+ + K R+ + + +LK + + + L
Sbjct: 286 VH--VPAEDRFLSALAGENDPEAKRKIIGRVFVEVFDEEALKLEDV---------KWLAQ 334
Query: 143 GTLFGDLACA----------------------------INPIGELFKTEVYELARRLNIP 174
GT++ D+ + + P+ ELFK EV ++ L +P
Sbjct: 335 GTIYPDVIESAASATGKAHVIKSHHNVGGLPKEMKMGLVEPLKELFKDEVRKIGLELGLP 394
Query: 175 KKILNKPP 182
+L + P
Sbjct: 395 YDMLYRHP 402
>pdb|1G0U|I Chain I, A Gated Channel Into The Proteasome Core Particle
pdb|1G0U|W Chain W, A Gated Channel Into The Proteasome Core Particle
pdb|1FNT|J Chain J, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
pdb|1FNT|X Chain X, Crystal Structure Of The 20s Proteasome From Yeast In
Complex With The Proteasome Activator Pa26 From
Trypanosome Brucei At 3.2 Angstroms Resolution
Length = 205
Score = 31.6 bits (70), Expect = 0.096
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 115 MAFLYDYSLKSDSLVIGTSNKSERMLGYGTLF---GDLACAINPIGELF--KTEVYELAR 169
+A D L S SL G SNK E++ YG +F LA + + E+F KT +Y+L
Sbjct: 21 VAIACDLRLGSQSL--GVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFRYKTNLYKLKE 78
Query: 170 RLNIPKKILNKPPSADLF 187
I + + S+ L+
Sbjct: 79 ERAIEPETFTQLVSSSLY 96
>pdb|1RYP|J Chain J, Crystal Structure Of The 20s Proteasome From Yeast At 2.4
Angstroms Resolution
pdb|1RYP|X Chain X, Crystal Structure Of The 20s Proteasome From Yeast At 2.4
Angstroms Resolution
pdb|1G65|I Chain I, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A
Molecular Basis For Selectivity Of
Alpha,Beta-Epoxyketone Proteasome Inhibitors
pdb|1G65|W Chain W, Crystal Structure Of Epoxomicin:20s Proteasome Reveals A
Molecular Basis For Selectivity Of
Alpha,Beta-Epoxyketone Proteasome Inhibitors
pdb|1JD2|I Chain I, Crystal Structure Of The Yeast 20s Proteasome:tmc-95a
Complex: A Non-Covalent Proteasome Inhibitor
pdb|1JD2|P Chain P, Crystal Structure Of The Yeast 20s Proteasome:tmc-95a
Complex: A Non-Covalent Proteasome Inhibitor
Length = 204
Score = 31.6 bits (70), Expect = 0.096
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 7/78 (8%)
Query: 115 MAFLYDYSLKSDSLVIGTSNKSERMLGYGTLF---GDLACAINPIGELF--KTEVYELAR 169
+A D L S SL G SNK E++ YG +F LA + + E+F KT +Y+L
Sbjct: 20 VAIACDLRLGSQSL--GVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFRYKTNLYKLKE 77
Query: 170 RLNIPKKILNKPPSADLF 187
I + + S+ L+
Sbjct: 78 ERAIEPETFTQLVSSSLY 95
>pdb|1CT9|A Chain A, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|B Chain B, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|C Chain C, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
pdb|1CT9|D Chain D, Crystal Structure Of Asparagine Synthetase B From
Escherichia Coli
Length = 553
Score = 26.9 bits (58), Expect = 2.4
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 16 LEKEVQKRGFKKVVYG--LSGGLDSAVVGVLCQK 47
LE V+ V YG LSGGLDS+++ + +K
Sbjct: 215 LEDSVKSHLMSDVPYGVLLSGGLDSSIISAITKK 248
>pdb|1J5S|A Chain A, Crystal Structure Of Uronate Isomerase (Tm0064) From
Thermotoga Maritima At 2.85 A Resolution
pdb|1J5S|B Chain B, Crystal Structure Of Uronate Isomerase (Tm0064) From
Thermotoga Maritima At 2.85 A Resolution
pdb|1J5S|C Chain C, Crystal Structure Of Uronate Isomerase (Tm0064) From
Thermotoga Maritima At 2.85 A Resolution
Length = 463
Score = 26.6 bits (57), Expect = 3.1
Identities = 22/78 (28%), Positives = 34/78 (43%), Gaps = 7/78 (8%)
Query: 49 FKENA-----HALLMPSSVSMPENKTDALNLCEKFSIPYTEYSIAPYDAIFSSHFKDASL 103
FKE+ HALL PS + EN+ A++ T+ I Y A F +
Sbjct: 234 FKEHGCVASDHALLEPSVYYVDENRARAVHEKAFSGEKLTQDEINDYKAFMMVQF--GKM 291
Query: 104 TRKGNFCARLRMAFLYDY 121
++ N+ +L + L DY
Sbjct: 292 NQETNWVTQLHIGALRDY 309
>pdb|1HSJ|A Chain A, Sarr Mbp Fusion Structure
pdb|1HSJ|B Chain B, Sarr Mbp Fusion Structure
Length = 487
Score = 25.4 bits (54), Expect = 6.9
Identities = 16/52 (30%), Positives = 22/52 (41%), Gaps = 2/52 (3%)
Query: 210 IEALFQTKPI--DTETLAQLGYDEILVKNITSRIQKNAFKLELPAIAKRFNP 259
+ A FQ K DT+ L Y+EI + N R + N + A F P
Sbjct: 383 VNATFQVKKFFRDTKKKFNLNYEEIYILNHILRSESNEISSKEIAKCSEFKP 434
>pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1JV2|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
Length = 957
Score = 25.4 bits (54), Expect = 6.9
Identities = 34/116 (29%), Positives = 49/116 (41%), Gaps = 13/116 (11%)
Query: 146 FGDLACAINPIGELFKTEVYELARR---LN-IPKKIL-------NKPPSADLFV-GQSDE 193
F D+A A GE K VY R LN +P +IL + PPS + G +D
Sbjct: 355 FNDIAIAAPYGGEDKKGIVYIFNGRSTGLNAVPSQILEGQWAARSMPPSFGYSMKGATDI 414
Query: 194 KDLGYPYSVIDPLLKDIEALFQTKPIDTETLAQLGYDEILVK-NITSRIQKNAFKL 248
GYP ++ D L++ +P+ T Y IL + N T + A K+
Sbjct: 415 DKNGYPDLIVGAFGVDRAILYRARPVITVNAGLEVYPSILNQDNKTCSLPGTALKV 470
>pdb|2GBP| D-GalactoseD-Glucose Binding Protein (GGBP)
pdb|1GLG| GalactoseGLUCOSE-Binding Protein Complexed With D-Galactose
Length = 309
Score = 25.0 bits (53), Expect = 9.0
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 147 GDLACAINPIGELFKTEVYELARRLNIPKKILNKPPS 183
G A AIN + V E AR N+P NK PS
Sbjct: 59 GVKALAINLVDPAAAGTVIEKARGQNVPVVFFNKEPS 95
>pdb|1C7N|A Chain A, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|B Chain B, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|C Chain C, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|D Chain D, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|E Chain E, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|F Chain F, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|G Chain G, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7N|H Chain H, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal 5'-Phosphate Cofactor
pdb|1C7O|A Chain A, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|B Chain B, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|C Chain C, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|D Chain D, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|E Chain E, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|F Chain F, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|G Chain G, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
pdb|1C7O|H Chain H, Crystal Structure Of Cystalysin From Treponema Denticola
Contains A Pyridoxal
5'-Phosphate-L-Aminoethoxyvinylglycine Complex
Length = 399
Score = 25.0 bits (53), Expect = 9.0
Identities = 28/90 (31%), Positives = 43/90 (47%), Gaps = 17/90 (18%)
Query: 154 NPIGELFKTEVYELARRLNIPKKILNKPPSADLFVGQSD-EKDL---GYPYSV---IDPL 206
NP+G ++K + EL + +I K +DL + + DL GY ++V ID
Sbjct: 175 NPVGRVWKKD--ELQKIKDIVLK-------SDLMLWSDEIHFDLIMPGYEHTVFQSIDEQ 225
Query: 207 LKDIEALFQTKPIDTETLAQLGYDEILVKN 236
L D F T P T +A +G I++KN
Sbjct: 226 LADKTITF-TAPSKTFNIAGMGMSNIIIKN 254
>pdb|3GBP| Galactose-Binding Protein Complex With Glucose
Length = 305
Score = 25.0 bits (53), Expect = 9.0
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 147 GDLACAINPIGELFKTEVYELARRLNIPKKILNKPPS 183
G A AIN + V E AR N+P NK PS
Sbjct: 57 GVKALAINLVDPAAAGTVIEKARGQNVPVVFFNKEPS 93
>pdb|1EJ6|C Chain C, Reovirus Core
pdb|1EJ6|B Chain B, Reovirus Core
Length = 1275
Score = 25.0 bits (53), Expect = 9.0
Identities = 15/58 (25%), Positives = 28/58 (47%), Gaps = 7/58 (12%)
Query: 195 DLGYPYSVIDPLLKDIEALFQTKPIDTETLAQLGYDEILVKNITSRIQKNAFKLELPA 252
++G +VI P+L+DI L Q ++ L D ++ N S + ++ + PA
Sbjct: 524 NIGNNATVIQPVLQDISVLLQ-------RISPLQIDPTIISNTMSTVSESTTQTLSPA 574
>pdb|1GCA| GlucoseGALACTOSE-Binding Protein Complex With Galactose
pdb|1GCG| GalactoseGLUCOSE-Binding Protein (Closed, Unliganded Form)
Length = 309
Score = 25.0 bits (53), Expect = 9.0
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 147 GDLACAINPIGELFKTEVYELARRLNIPKKILNKPPS 183
G A AIN + V E AR N+P NK PS
Sbjct: 59 GVKALAINLVDPAAAGTVIEKARGQNVPVVFFNKEPS 95
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.319 0.138 0.394
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,469,891
Number of Sequences: 13198
Number of extensions: 59412
Number of successful extensions: 129
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 119
Number of HSP's gapped (non-prelim): 14
length of query: 260
length of database: 2,899,336
effective HSP length: 86
effective length of query: 174
effective length of database: 1,764,308
effective search space: 306989592
effective search space used: 306989592
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)