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|15645361|ref|NP_207535.1| conserved hypothetical
protein [Helicobacter pylori 26695]
(161 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|1EMS|A Chain A, Crystal Structure Of The C. Elegans Nit... 38 6e-04
pdb|6FIT| Fhit-Transition State Analog >gi|3114520|pdb|4F... 29 0.30
pdb|1KPE|A Chain A, Pkci-Transition State Analog >gi|311450... 28 0.66
pdb|2FIT| Fhit (Fragile Histidine Triad Protein) >gi|2781... 28 0.66
pdb|2FHI| Substrate Analog (Ib2) Complex With The His 96 ... 26 1.9
pdb|1QHP|A Chain A, Five-Domain Alpha-Amylase From Bacillus... 26 2.5
pdb|1BIX| The Crystal Structure Of The Human Dna Repair E... 25 3.3
pdb|1DE8|A Chain A, Human ApurinicAPYRIMIDINIC ENDONUCLEASE... 25 3.3
pdb|1E9N|B Chain B, A Second Divalent Metal Ion In The Acti... 25 3.3
pdb|1GHS|A Chain A, 1,3-Beta-Glucanase (E.C.3.2.1.39) (1,3-... 25 3.3
pdb|1DEW|B Chain B, Crystal Structure Of Human Ape1 Bound T... 25 3.3
pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein... 25 5.6
pdb|1B4U|B Chain B, Protocatechuate 4,5-Dioxygenase (Ligab)... 24 7.3
>pdb|1EMS|A Chain A, Crystal Structure Of The C. Elegans Nitfhit Protein
pdb|1EMS|B Chain B, Crystal Structure Of The C. Elegans Nitfhit Protein
Length = 440
Score = 37.7 bits (86), Expect = 6e-04
Identities = 27/96 (28%), Positives = 46/96 (47%), Gaps = 4/96 (4%)
Query: 35 NRVLYRNSDLFVVMNAYPYNPGHLLIIP-HVHQASVELLDLNTWLNMNALAPKVLKALYA 93
+ + Y FV +N P GH+L+ P V +L D T ++ +A KV L
Sbjct: 309 DHIFYSTPHSFVFVNLKPVTDGHVLVSPKRVVPRLTDLTDAET-ADLFIVAKKVQAMLEK 367
Query: 94 Y-GAQGINLGLNLHRNAGAGIPEHLHMHLVPRFLGD 128
+ + + ++AG +P H+H+H++PR GD
Sbjct: 368 HHNVTSTTICVQDGKDAGQTVP-HVHIHILPRRAGD 402
>pdb|6FIT| Fhit-Transition State Analog
pdb|4FIT| Fhit-Apo
pdb|1FHI| Substrate Analog (Ib2) Complex With The Fragile Histidine Triad
Protein, Fhit
Length = 147
Score = 28.9 bits (63), Expect = 0.30
Identities = 27/101 (26%), Positives = 46/101 (44%), Gaps = 17/101 (16%)
Query: 37 VLYRNSDL-FVVMNAYPYNPGHLLIIP-----HVHQASV-ELLDL-NTWLNMNALAPKVL 88
V++ ++L F ++N P PGH+L+ P H E+ DL T + + K
Sbjct: 14 VVFLKTELSFALVNRKPVVPGHVLVCPLRPVERFHDLRPDEVADLFQTTQRVGTVVEKHF 73
Query: 89 KALYAYGAQGINLGLNLHRNAGAG-IPEHLHMHLVPRFLGD 128
G +L ++ AG +H+H+H++PR GD
Sbjct: 74 --------HGTSLTFSMQDGPEAGQTVKHVHVHVLPRKAGD 106
>pdb|1KPE|A Chain A, Pkci-Transition State Analog
pdb|1KPE|B Chain B, Pkci-Transition State Analog
pdb|1AV5|A Chain A, Pkci-Substrate Analog
pdb|1AV5|B Chain B, Pkci-Substrate Analog
pdb|1KPA|A Chain A, Pkci-1-Zinc
pdb|1KPA|B Chain B, Pkci-1-Zinc
pdb|1KPB|A Chain A, Pkci-1-Apo
pdb|1KPB|B Chain B, Pkci-1-Apo
pdb|1KPF| Pkci-Substrate Analog
pdb|1KPC|C Chain C, Pkci-1-Apo+zinc
pdb|1KPC|A Chain A, Pkci-1-Apo+zinc
pdb|1KPC|B Chain B, Pkci-1-Apo+zinc
pdb|1KPC|D Chain D, Pkci-1-Apo+zinc
Length = 126
Score = 27.7 bits (60), Expect = 0.66
Identities = 23/97 (23%), Positives = 42/97 (42%), Gaps = 10/97 (10%)
Query: 31 KDSENRVLYRNSDLFVVMNAYPYNPGHLLIIP--HVHQASVELLDLNTWLNMNALAPKVL 88
K+ ++++ + + P P H L+IP H+ Q SV D + L + K
Sbjct: 25 KEIPAKIIFEDDRCLAFHDISPQAPTHFLVIPKKHISQISVAEDDDESLLGHLMIVGKKC 84
Query: 89 KALYAYGAQGINLGLNLHRNAGAGIPE---HLHMHLV 122
A G+N G + N G+ + H+H+H++
Sbjct: 85 AA-----DLGLNKGYRMVVNEGSDGGQSVYHVHLHVL 116
>pdb|2FIT| Fhit (Fragile Histidine Triad Protein)
pdb|1FIT| Fhit (Fragile Histidine Triad Protein)
pdb|5FIT| Fhit-Substrate Analog
pdb|3FIT|A Chain A, Fhit (Fragile Histidine Triad Protein) In Complex With
AdenosineSULFATE AMP ANALOG
Length = 147
Score = 27.7 bits (60), Expect = 0.66
Identities = 27/101 (26%), Positives = 45/101 (43%), Gaps = 17/101 (16%)
Query: 37 VLYRNSDL-FVVMNAYPYNPGHLLIIP-----HVHQASV-ELLDL-NTWLNMNALAPKVL 88
V++ ++L F ++N P PGH+L+ P H E+ DL T + + K
Sbjct: 14 VVFLKTELSFALVNRKPVVPGHVLVCPLRPVERFHDLRPDEVADLFQTTQRVGTVVEKHF 73
Query: 89 KALYAYGAQGINLGLNLHRNAGAG-IPEHLHMHLVPRFLGD 128
G +L + AG +H+H+H++PR GD
Sbjct: 74 --------HGTSLTFSXQDGPEAGQTVKHVHVHVLPRKAGD 106
>pdb|2FHI| Substrate Analog (Ib2) Complex With The His 96 Asn Substitution Of
The Fragile Histidine Triad Protein, Fhit
Length = 147
Score = 26.2 bits (56), Expect = 1.9
Identities = 26/101 (25%), Positives = 46/101 (44%), Gaps = 17/101 (16%)
Query: 37 VLYRNSDL-FVVMNAYPYNPGHLLIIP-----HVHQASV-ELLDL-NTWLNMNALAPKVL 88
V++ ++L F ++N P PGH+L+ P H E+ DL T + + K
Sbjct: 14 VVFLKTELSFALVNRKPVVPGHVLVCPLRPVERFHDLRPDEVADLFQTTQRVGTVVEKHF 73
Query: 89 KALYAYGAQGINLGLNLHRNAGAG-IPEHLHMHLVPRFLGD 128
G +L ++ AG +H+++H++PR GD
Sbjct: 74 --------HGTSLTFSMQDGPEAGQTVKHVNVHVLPRKAGD 106
>pdb|1QHP|A Chain A, Five-Domain Alpha-Amylase From Bacillus
Stearothermophilus, Maltose Complex
pdb|1QHO|A Chain A, Five-Domain Alpha-Amylase From Bacillus
Stearothermophilus, MaltoseACARBOSE COMPLEX
Length = 686
Score = 25.8 bits (55), Expect = 2.5
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 5/44 (11%)
Query: 38 LYRNSDLFVVMNAYPYNPG---HLLIIPHVHQASVELL--DLNT 76
LY+ D+F+V Y +PG HL + + + + V +L DLNT
Sbjct: 245 LYQKKDIFLVGEWYGDDPGTANHLEKVRYANNSGVNVLDFDLNT 288
>pdb|1BIX| The Crystal Structure Of The Human Dna Repair Endonuclease Hap1
Suggests The Recognition Of Extra-Helical Deoxyribose At
Dna Abasic Sites
Length = 287
Score = 25.4 bits (54), Expect = 3.3
Identities = 12/29 (41%), Positives = 16/29 (54%)
Query: 32 DSENRVLYRNSDLFVVMNAYPYNPGHLLI 60
D E RV+ D FV++ AY N G L+
Sbjct: 121 DQEGRVIVAEFDSFVLVTAYVPNAGRGLV 149
>pdb|1DE8|A Chain A, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To
Abasic Dna
pdb|1DE8|B Chain B, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To
Abasic Dna
pdb|1DE9|A Chain A, Human Ape1 Endonuclease With Bound Abasic Dna And Mn2+ Ion
pdb|1DE9|B Chain B, Human Ape1 Endonuclease With Bound Abasic Dna And Mn2+ Ion
Length = 276
Score = 25.4 bits (54), Expect = 3.3
Identities = 12/29 (41%), Positives = 16/29 (54%)
Query: 32 DSENRVLYRNSDLFVVMNAYPYNPGHLLI 60
D E RV+ D FV++ AY N G L+
Sbjct: 110 DQEGRVIVAEFDSFVLVTAYVPNAGRGLV 138
>pdb|1E9N|B Chain B, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|1E9N|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|1HD7|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIDINIMIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
Length = 318
Score = 25.4 bits (54), Expect = 3.3
Identities = 12/29 (41%), Positives = 16/29 (54%)
Query: 32 DSENRVLYRNSDLFVVMNAYPYNPGHLLI 60
D E RV+ D FV++ AY N G L+
Sbjct: 152 DQEGRVIVAEFDSFVLVTAYVPNAGRGLV 180
>pdb|1GHS|A Chain A, 1,3-Beta-Glucanase (E.C.3.2.1.39) (1,3-Beta-D-Glucan
Endohydrolase, Isozyme Ii)
pdb|1GHS|B Chain B, 1,3-Beta-Glucanase (E.C.3.2.1.39) (1,3-Beta-D-Glucan
Endohydrolase, Isozyme Ii)
Length = 306
Score = 25.4 bits (54), Expect = 3.3
Identities = 15/53 (28%), Positives = 24/53 (44%), Gaps = 5/53 (9%)
Query: 46 VVMNAYPY-----NPGHLLIIPHVHQASVELLDLNTWLNMNALAPKVLKALYA 93
++ N YPY NPG + + Q + D N L +L ++ A+YA
Sbjct: 163 LLANVYPYFAYRDNPGSISLNYATFQPGTTVRDQNNGLTYTSLFDAMVDAVYA 215
>pdb|1DEW|B Chain B, Crystal Structure Of Human Ape1 Bound To Abasic Dna
pdb|1DEW|A Chain A, Crystal Structure Of Human Ape1 Bound To Abasic Dna
Length = 279
Score = 25.4 bits (54), Expect = 3.3
Identities = 12/29 (41%), Positives = 16/29 (54%)
Query: 32 DSENRVLYRNSDLFVVMNAYPYNPGHLLI 60
D E RV+ D FV++ AY N G L+
Sbjct: 113 DQEGRVIVAEFDSFVLVTAYVPNAGRGLV 141
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 24.6 bits (52), Expect = 5.6
Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 103 LNLHRNAGAGIPEHLHMHLVPRFLGDSNFMSVIAQTR 139
LN RN G P + ++P FL D +++AQ R
Sbjct: 18 LNAIRNKGFEKPTDIQXKVIPLFLNDE--YNIVAQAR 52
>pdb|1B4U|B Chain B, Protocatechuate 4,5-Dioxygenase (Ligab) In Complex With
Protocatechuate (Pca)
pdb|1B4U|D Chain D, Protocatechuate 4,5-Dioxygenase (Ligab) In Complex With
Protocatechuate (Pca)
pdb|1BOU|B Chain B, Three-Dimensional Structure Of Ligab
pdb|1BOU|D Chain D, Three-Dimensional Structure Of Ligab
Length = 302
Score = 24.3 bits (51), Expect = 7.3
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 54 NPGHLLIIPHVH---QASVELLDLNTWLNMNALAPKVLKALYAY 94
+P L +PH+ ++ E ++L WL M P+ ++ LY +
Sbjct: 220 DPEELSKMPHIQYLRESGSEGVELVMWLIMRGALPEKVRDLYTF 263
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 0.138 0.421
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 974,332
Number of Sequences: 13198
Number of extensions: 38577
Number of successful extensions: 51
Number of sequences better than 10.0: 13
Number of HSP's better than 10.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 47
Number of HSP's gapped (non-prelim): 13
length of query: 161
length of database: 2,899,336
effective HSP length: 81
effective length of query: 80
effective length of database: 1,830,298
effective search space: 146423840
effective search space used: 146423840
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: 50 (23.9 bits)