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|15645570|ref|NP_207746.1| oxygen-insensitive NAD(P)H
nitroreductase [Helicobacter pylori 26695]
(210 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|1KQB|A Chain A, Structure Of Nitroreductase From E. Clo... 71 8e-14
pdb|1NEC|A Chain A, Nitroreductase From Enterobacter Cloaca... 71 8e-14
pdb|1ICU|B Chain B, The Structure Of Escherichia Coli Nitro... 70 2e-13
pdb|1DS7|B Chain B, A Minor Fmn-Dependent Nitroreductase Fr... 70 2e-13
pdb|1ICV|A Chain A, The Structure Of Escherichia Coli Nitro... 67 2e-12
pdb|1VFR|A Chain A, The Major Nad(P)h:fmn Oxidoreductase Fr... 55 5e-09
pdb|1NOX| Nadh Oxidase From Thermus Thermophilus 54 2e-08
pdb|1BJ1|J Chain J, Vascular Endothelial Growth Factor In C... 34 0.011
pdb|1CZ8|L Chain L, Vascular Endothelial Growth Factor In C... 34 0.011
pdb|1JPS|L Chain L, Crystal Structure Of Tissue Factor In C... 32 0.054
pdb|1I7Z|A Chain A, Antibody Gnc92h2 Bound To Ligand >gi|15... 29 0.46
pdb|1GV0|A Chain A, Structural Basis For Thermophilic Prote... 28 0.60
pdb|1B7E|A Chain A, Transposase Inhibitor 25 5.1
pdb|1J5S|A Chain A, Crystal Structure Of Uronate Isomerase ... 25 5.1
pdb|1I6H|B Chain B, Rna Polymerase Ii Elongation Complex >g... 25 8.6
>pdb|1KQB|A Chain A, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Benzoate
pdb|1KQB|B Chain B, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Benzoate
pdb|1KQB|C Chain C, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Benzoate
pdb|1KQB|D Chain D, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Benzoate
pdb|1KQC|A Chain A, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Acetate
pdb|1KQC|B Chain B, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Acetate
pdb|1KQC|C Chain C, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Acetate
pdb|1KQC|D Chain D, Structure Of Nitroreductase From E. Cloacae Complex With
Inhibitor Acetate
pdb|1KQD|A Chain A, Structure Of Nitroreductase From E. Cloacae Bound With 2e-
Reduced Flavin Mononucleotide (Fmn)
pdb|1KQD|B Chain B, Structure Of Nitroreductase From E. Cloacae Bound With 2e-
Reduced Flavin Mononucleotide (Fmn)
pdb|1KQD|C Chain C, Structure Of Nitroreductase From E. Cloacae Bound With 2e-
Reduced Flavin Mononucleotide (Fmn)
pdb|1KQD|D Chain D, Structure Of Nitroreductase From E. Cloacae Bound With 2e-
Reduced Flavin Mononucleotide (Fmn)
Length = 217
Score = 71.2 bits (173), Expect = 8e-14
Identities = 48/160 (30%), Positives = 81/160 (50%), Gaps = 9/160 (5%)
Query: 15 ERHSCKMFDSHYEFSSTELEEIAEIARLSPSSYNTQPWHFVMVTDKDLKKQI---AAHSY 71
+RHS K FD+ + ++ E E+I + + SPSS N+QPWHF++ + ++ K ++ AA +Y
Sbjct: 9 KRHSTKAFDASKKLTAEEAEKIKTLLQYSPSSTNSQPWHFIVASTEEGKARVAKSAAGTY 68
Query: 72 -FNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQMLGVRFNHSMQ 130
FNE + AS ++V C+ + + + A G + M
Sbjct: 69 VFNERKMLDASHVVVFCAKTAMDDAWLERVVDQEEADGRFNTPEAKAANHKGRTYFADMH 128
Query: 131 RL-----ESYILEQCYIAVGQICMGVSLMGLDSCIIGGFD 165
R+ + ++ +Q Y+ VG +GV MGLD+ I GFD
Sbjct: 129 RVDLKDDDQWMAKQVYLNVGNFLLGVGAMGLDAVPIEGFD 168
>pdb|1NEC|A Chain A, Nitroreductase From Enterobacter Cloacae
pdb|1NEC|B Chain B, Nitroreductase From Enterobacter Cloacae
pdb|1NEC|C Chain C, Nitroreductase From Enterobacter Cloacae
pdb|1NEC|D Chain D, Nitroreductase From Enterobacter Cloacae
Length = 216
Score = 71.2 bits (173), Expect = 8e-14
Identities = 48/160 (30%), Positives = 81/160 (50%), Gaps = 9/160 (5%)
Query: 15 ERHSCKMFDSHYEFSSTELEEIAEIARLSPSSYNTQPWHFVMVTDKDLKKQI---AAHSY 71
+RHS K FD+ + ++ E E+I + + SPSS N+QPWHF++ + ++ K ++ AA +Y
Sbjct: 8 KRHSTKAFDASKKLTAEEAEKIKTLLQYSPSSTNSQPWHFIVASTEEGKARVAKSAAGTY 67
Query: 72 -FNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQMLGVRFNHSMQ 130
FNE + AS ++V C+ + + + A G + M
Sbjct: 68 VFNERKMLDASHVVVFCAKTAMDDAWLERVVDQEEADGRFNTPEAKAANHKGRTYFADMH 127
Query: 131 RL-----ESYILEQCYIAVGQICMGVSLMGLDSCIIGGFD 165
R+ + ++ +Q Y+ VG +GV MGLD+ I GFD
Sbjct: 128 RVDLKDDDQWMAKQVYLNVGNFLLGVGAMGLDAVPIEGFD 167
>pdb|1ICU|B Chain B, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICU|D Chain D, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1DS7|A Chain A, A Minor Fmn-Dependent Nitroreductase From Escherichia Coli
B
pdb|1ICR|A Chain A, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICR|B Chain B, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICU|A Chain A, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICU|C Chain C, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
Length = 217
Score = 70.1 bits (170), Expect = 2e-13
Identities = 46/160 (28%), Positives = 79/160 (48%), Gaps = 9/160 (5%)
Query: 15 ERHSCKMFDSHYEFSSTELEEIAEIARLSPSSYNTQPWHFVMVTDKDLK----KQIAAHS 70
+RHS K FD+ + + + E+I + + SPSS N+QPWHF++ + ++ K K A +
Sbjct: 9 KRHSTKAFDASKKLTPEQAEQIKTLLQYSPSSTNSQPWHFIVASTEEGKARVAKSAAGNY 68
Query: 71 YFNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQMLGVRFNHSMQ 130
FNE + AS ++V C+ + + + + A G +F M
Sbjct: 69 VFNERKMLDASHVVVFCAKTAMDDVWLKLVVDQEDADGRFATPEAKAANDKGRKFFADMH 128
Query: 131 RLE-----SYILEQCYIAVGQICMGVSLMGLDSCIIGGFD 165
R + ++ +Q Y+ VG +GV+ +GLD+ I GFD
Sbjct: 129 RKDLHDDAEWMAKQVYLNVGNFLLGVAALGLDAVPIEGFD 168
>pdb|1DS7|B Chain B, A Minor Fmn-Dependent Nitroreductase From Escherichia Coli
B
Length = 217
Score = 70.1 bits (170), Expect = 2e-13
Identities = 46/160 (28%), Positives = 79/160 (48%), Gaps = 9/160 (5%)
Query: 15 ERHSCKMFDSHYEFSSTELEEIAEIARLSPSSYNTQPWHFVMVTDKDLK----KQIAAHS 70
+RHS K FD+ + + + E+I + + SPSS N+QPWHF++ + ++ K K A +
Sbjct: 9 KRHSTKAFDASKKLTPEQAEQIKTLLQYSPSSTNSQPWHFIVASTEEGKARVAKSAAGNY 68
Query: 71 YFNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQMLGVRFNHSMQ 130
FNE + AS ++V C+ + + + + A G +F M
Sbjct: 69 VFNERKMLDASHVVVFCAKTAMDDVWLKLVVDQEDADGRFATPEAKAANDKGRKFFADMH 128
Query: 131 RLE-----SYILEQCYIAVGQICMGVSLMGLDSCIIGGFD 165
R + ++ +Q Y+ VG +GV+ +GLD+ I GFD
Sbjct: 129 RKDLHDDAEWMAKQVYLNVGNFLLGVAALGLDAVPIEGFD 168
>pdb|1ICV|A Chain A, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICV|B Chain B, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICV|C Chain C, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
pdb|1ICV|D Chain D, The Structure Of Escherichia Coli Nitroreductase Complexed
With Nicotinic Acid
Length = 217
Score = 66.6 bits (161), Expect = 2e-12
Identities = 45/160 (28%), Positives = 76/160 (47%), Gaps = 9/160 (5%)
Query: 15 ERHSCKMFDSHYEFSSTELEEIAEIARLSPSSYNTQPWHFVMVTDKDLK----KQIAAHS 70
+RHS K FD+ + + + E+I + + SPSS N+QPWHF++ + ++ K K A +
Sbjct: 9 KRHSTKAFDASKKLTPEQAEQIKTLLQYSPSSTNSQPWHFIVASTEEGKARVAKSAAGNY 68
Query: 71 YFNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQMLGVRFNHSMQ 130
FNE AS ++V C+ + + + + A G +F
Sbjct: 69 VFNERKXLDASHVVVFCAKTAXDDVWLKLVVDQEDADGRFATPEAKAANDKGRKFFADXH 128
Query: 131 RLE-----SYILEQCYIAVGQICMGVSLMGLDSCIIGGFD 165
R + + +Q Y+ VG +GV+ +GLD+ I GFD
Sbjct: 129 RKDLHDDAEWXAKQVYLNVGNFLLGVAALGLDAVPIEGFD 168
>pdb|1VFR|A Chain A, The Major Nad(P)h:fmn Oxidoreductase From Vibrio Fischeri
pdb|1VFR|B Chain B, The Major Nad(P)h:fmn Oxidoreductase From Vibrio Fischeri
Length = 218
Score = 55.5 bits (132), Expect = 5e-09
Identities = 50/211 (23%), Positives = 94/211 (43%), Gaps = 14/211 (6%)
Query: 13 LNERHSCKMFDSHYEFSSTELEEIAEIARLSPSSYNTQPWHFVMVTDKDLKKQIAAHSY- 71
L R++ K +D + S +L + E RLS SS N+QPW F+++ + D KQ S+
Sbjct: 9 LENRYTSKKYDPSKKVSQEDLAVLLEALRLSASSINSQPWKFIVI-ESDAAKQRMHDSFA 67
Query: 72 ----FNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPES--YKVRVIPSFAQMLGVRF 125
FN+ IK+ S +++ + + + + + + +FA V
Sbjct: 68 NMHQFNQPHIKACSHVILFANKLSYTRDDYDVVLSKAVADKRITEEQKEAAFASFKFVEL 127
Query: 126 N-HSMQRLESYILEQCYIAVGQICMGVSLMGLDSCIIGGFDPLKVGEVLEERINKPKIAC 184
N +++ Q Y+A+G ++ + +DS + G DP + E+ + + +
Sbjct: 128 NCDENGEHKAWTKPQAYLALGNALHTLARLNIDSTTMEGIDPELLSEIFADELKGYECHV 187
Query: 185 LIALG-----KRVAEASQKSRKSKVDAITWL 210
+A+G + + KSRK+ D IT L
Sbjct: 188 ALAIGYHHPSEDYNASLPKSRKAFEDVITIL 218
>pdb|1NOX| Nadh Oxidase From Thermus Thermophilus
Length = 205
Score = 53.5 bits (127), Expect = 2e-08
Identities = 47/184 (25%), Positives = 82/184 (44%), Gaps = 19/184 (10%)
Query: 33 LEEIAEIARLSPSSYNTQPWHFVMVTDKDLKKQIAAHSYFNEEMIKSASALMVVCSLRPS 92
L EI E A +PS++N QPW V+V D K+ + + F + ++ A ++V+ +
Sbjct: 33 LREILEAALRAPSAWNLQPWRIVVVRDPATKRAL-REAAFGQAHVEEAPVVLVLYADLED 91
Query: 93 ELLPHGHYMQNLYP-------ESYKVRVIPSFAQMLGVRFNHSMQRLESYILEQCYIAVG 145
L H + ++P E+ K + +FA M + +++ Q YI +G
Sbjct: 92 AL---AHLDEVIHPGVQGERREAQKQAIQRAFAAM-------GQEARKAWASGQSYILLG 141
Query: 146 QICMGVSLMGLDSCIIGGFDPLKVGEVLEERINKPKIACLIALGKRVAEASQKSRKSKVD 205
+ + + GL S + GFDP +V +L ++ I L+ALG E R
Sbjct: 142 YLLLLLEAYGLGSVPMLGFDPERVRAIL-GLPSRAAIPALVALGYPAEEGYPSHRLPLER 200
Query: 206 AITW 209
+ W
Sbjct: 201 VVLW 204
>pdb|1BJ1|J Chain J, Vascular Endothelial Growth Factor In Complex With A
Neutralizing Antibody
pdb|1BJ1|L Chain L, Vascular Endothelial Growth Factor In Complex With A
Neutralizing Antibody
Length = 214
Score = 34.3 bits (77), Expect = 0.011
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 17/70 (24%)
Query: 47 YNTQPWHFVMVTDKDLKKQIAAHSYF----NEEMIKSASALMVVCSLRPSELLPHGHYMQ 102
Y+T PW F T ++K+ +AA S F ++E +KS +A VVC L
Sbjct: 91 YSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTA-SVVCLL------------N 137
Query: 103 NLYPESYKVR 112
N YP KV+
Sbjct: 138 NFYPREAKVQ 147
>pdb|1CZ8|L Chain L, Vascular Endothelial Growth Factor In Complex With An
Affinity Matured Antibody
pdb|1CZ8|X Chain X, Vascular Endothelial Growth Factor In Complex With An
Affinity Matured Antibody
Length = 213
Score = 34.3 bits (77), Expect = 0.011
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 17/70 (24%)
Query: 47 YNTQPWHFVMVTDKDLKKQIAAHSYF----NEEMIKSASALMVVCSLRPSELLPHGHYMQ 102
Y+T PW F T ++K+ +AA S F ++E +KS +A VVC L
Sbjct: 91 YSTVPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTA-SVVCLL------------N 137
Query: 103 NLYPESYKVR 112
N YP KV+
Sbjct: 138 NFYPREAKVQ 147
>pdb|1JPS|L Chain L, Crystal Structure Of Tissue Factor In Complex With
Humanized Fab D3h44
pdb|1JPT|L Chain L, Crystal Structure Of Fab D3h44
Length = 214
Score = 32.0 bits (71), Expect = 0.054
Identities = 28/101 (27%), Positives = 42/101 (40%), Gaps = 25/101 (24%)
Query: 24 SHYEFSSTELEEIAEIARLSPSSYNT--------QPWHFVMVTDKDLKKQIAAHSYF--- 72
S + S + + I+ L P + T PW F T ++K+ +AA S F
Sbjct: 60 SRFSGSGSGTDYTLTISSLQPEDFATYYCLQHGESPWTFGQGTKVEIKRTVAAPSVFIFP 119
Query: 73 -NEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVR 112
++E +KS +A VVC L N YP KV+
Sbjct: 120 PSDEQLKSGTA-SVVCLL------------NNFYPREAKVQ 147
>pdb|1I7Z|A Chain A, Antibody Gnc92h2 Bound To Ligand
pdb|1I7Z|C Chain C, Antibody Gnc92h2 Bound To Ligand
Length = 219
Score = 28.9 bits (63), Expect = 0.46
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 17/66 (25%)
Query: 51 PWHFVMVTDKDLKKQIAAHSYF----NEEMIKSASALMVVCSLRPSELLPHGHYMQNLYP 106
PW F T ++K+ +AA S F ++E +KS +A VVC L N YP
Sbjct: 100 PWTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTA-SVVCLL------------NNFYP 146
Query: 107 ESYKVR 112
KV+
Sbjct: 147 REAKVQ 152
>pdb|1GV0|A Chain A, Structural Basis For Thermophilic Protein Stability:
Structures Of Thermophilic And Mesophilic Malate
Dehydrogenases
pdb|1GV0|B Chain B, Structural Basis For Thermophilic Protein Stability:
Structures Of Thermophilic And Mesophilic Malate
Dehydrogenases
Length = 310
Score = 28.5 bits (62), Expect = 0.60
Identities = 32/135 (23%), Positives = 60/135 (43%), Gaps = 21/135 (15%)
Query: 76 MIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQMLGVRFNHSMQRLESY 135
M S + ++VV S P +++ H + ++ P K RVI + RF S+
Sbjct: 106 MEHSKNPIIVVVS-NPLDIMTHVAWQKSGLP---KERVIGMAGVLDSARFR-------SF 154
Query: 136 ILEQCYIAVGQICMGVSLMGLDSCIIGGFDPLKVGEVLEERINKPKIACLIALGKRVAEA 195
I + +GVS+ + +C++GG V V + +A LI+ +R+AE
Sbjct: 155 IAME---------LGVSMQDVTACVLGGHGDAMVPVVKYTTVAGIPVADLIS-AERIAEL 204
Query: 196 SQKSRKSKVDAITWL 210
+++R + + L
Sbjct: 205 VERTRTGGAEIVNHL 219
>pdb|1B7E|A Chain A, Transposase Inhibitor
Length = 420
Score = 25.4 bits (54), Expect = 5.1
Identities = 16/87 (18%), Positives = 42/87 (47%), Gaps = 3/87 (3%)
Query: 61 DLKKQIAAHSYFNEEMIKSASALMVVCSLRPSELLPHGHYMQNLYPESYKVRVIPSFAQM 120
+L++ ++ S+ +++ + + +LR LL ++++ +S + + P Q+
Sbjct: 293 NLERMVSILSFVAVRLLQLRESFTLPQALRAQGLLKEAEHVES---QSAETVLTPDECQL 349
Query: 121 LGVRFNHSMQRLESYILEQCYIAVGQI 147
LG +R E L+ Y+A+ ++
Sbjct: 350 LGYLDKGKRKRKEKGSLQWAYMAIARL 376
>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 = 25.4 bits (54), Expect = 5.1
Identities = 12/29 (41%), Positives = 14/29 (47%)
Query: 26 YEFSSTELEEIAEIARLSPSSYNTQPWHF 54
Y T L I+ IAR P+ Y PW F
Sbjct: 352 YVLDPTHLPTISTIARAFPNVYVGAPWWF 380
>pdb|1I6H|B Chain B, Rna Polymerase Ii Elongation Complex
pdb|1I50|B Chain B, Rna Polymerase Ii Crystal Form Ii At 2.8 A Resolution
pdb|1I3Q|B Chain B, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution
pdb|1K83|B Chain B, Crystal Structure Of Yeast Rna Polymerase Ii Complexed
With The Inhibitor Alpha Amanitin
Length = 1224
Score = 24.6 bits (52), Expect = 8.6
Identities = 13/31 (41%), Positives = 16/31 (50%)
Query: 145 GQICMGVSLMGLDSCIIGGFDPLKVGEVLEE 175
GQ C V + L SCI G DP+ + L E
Sbjct: 530 GQACGLVKNLSLMSCISVGTDPMPIITFLSE 560
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
0.321 0.134 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: 1,116,599
Number of Sequences: 13198
Number of extensions: 43655
Number of successful extensions: 70
Number of sequences better than 10.0: 15
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 50
Number of HSP's gapped (non-prelim): 19
length of query: 210
length of database: 2,899,336
effective HSP length: 84
effective length of query: 126
effective length of database: 1,790,704
effective search space: 225628704
effective search space used: 225628704
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)