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|15645614|ref|NP_207790.1| hypothetical protein
[Helicobacter pylori 26695]
(61 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|1HU3|A Chain A, Middle Domain Of Human Eif4gii 30 0.040
pdb|1B92|A Chain A, Mobility Of An Hiv-1 Integrase Active S... 25 2.2
pdb|1B9F|A Chain A, Mobility Of An Hiv-1 Integrase Active S... 25 2.2
pdb|1BIZ|A Chain A, Hiv-1 Integrase Core Domain >gi|3660035... 24 2.9
pdb|1QS4|B Chain B, Core Domain Of Hiv-1 Integrase Comlexed... 24 2.9
pdb|1BIU|A Chain A, Hiv-1 Integrase Core Domain Complexed W... 24 2.9
pdb|1BIS|B Chain B, Hiv-1 Integrase Core Domain >gi|3660029... 24 2.9
pdb|1B9D|A Chain A, Mobility Of An Hiv-1 Integrase Active S... 24 2.9
pdb|1HYV|A Chain A, Hiv Integrase Core Domain Complexed Wit... 24 2.9
pdb|1K6Y|B Chain B, Crystal Structure Of A Two-Domain Fragm... 24 2.9
pdb|1ITG| Hiv-1 Integrase (Catalytic Domain Comprising Re... 24 2.9
pdb|1EX4|A Chain A, Hiv-1 Integrase Catalytic Core And C-Te... 24 3.8
pdb|1BHL| Cacodylated Catalytic Domain Of Hiv-1 Integrase 24 3.8
pdb|2ITG| Catalytic Domain Of Hiv-1 Integrase: Ordered Ac... 24 3.8
pdb|1BL3|C Chain C, Catalytic Domain Of Hiv-1 Integrase >gi... 24 3.8
pdb|1EXQ|A Chain A, Crystal Structure Of The Hiv-1 Integras... 24 3.8
pdb|1LLD|A Chain A, L-Lactate Dehydrogenase (E.C.1.1.1.27) ... 24 3.8
pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoen... 23 6.4
pdb|1CEW|I Chain I, Cystatin >gi|3212399|pdb|1A67| Chicken... 23 6.4
pdb|1A90| Recombinant Mutant Chicken Egg White Cystatin, ... 23 6.4
pdb|1BI4|B Chain B, Catalytic Domain Of Hiv-1 Integrase 23 8.4
pdb|1L55| Lysozyme (E.C.3.2.1.17) (Mutant With Cys 54 Rep... 23 8.4
>pdb|1HU3|A Chain A, Middle Domain Of Human Eif4gii
Length = 260
Score = 30.4 bits (67), Expect = 0.040
Identities = 17/48 (35%), Positives = 25/48 (51%)
Query: 3 KDRDYKPVFNPKSKEVLEKMNAEKRASLVDEREEVKEQANQEAYRPMK 50
KD+ VF K KE+ E+R L DE EE K++A + + +K
Sbjct: 104 KDKADDDVFEKKQKELEAASAPEERTRLHDELEEAKDKARRRSIGNIK 151
>pdb|1B92|A Chain A, Mobility Of An Hiv-1 Integrase Active Site Loop Is
Correlated With Catalytic Activity
Length = 163
Score = 24.6 bits (52), Expect = 2.2
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 94 YNPQSQAVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 137
>pdb|1B9F|A Chain A, Mobility Of An Hiv-1 Integrase Active Site Loop Is
Correlated With Catalytic Activity
Length = 163
Score = 24.6 bits (52), Expect = 2.2
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 94 YNPQSQAVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 137
>pdb|1BIZ|A Chain A, Hiv-1 Integrase Core Domain
pdb|1BIZ|B Chain B, Hiv-1 Integrase Core Domain
Length = 166
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 97 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 140
>pdb|1QS4|B Chain B, Core Domain Of Hiv-1 Integrase Comlexed With Mg++ And
1-(5-
Chloroindol-3-Yl)-3-Hydroxy-3-(2h-Tetrazol-5-Yl)-
Propenone
pdb|1QS4|C Chain C, Core Domain Of Hiv-1 Integrase Comlexed With Mg++ And
1-(5-
Chloroindol-3-Yl)-3-Hydroxy-3-(2h-Tetrazol-5-Yl)-
Propenone
pdb|1QS4|A Chain A, Core Domain Of Hiv-1 Integrase Comlexed With Mg++ And
1-(5-
Chloroindol-3-Yl)-3-Hydroxy-3-(2h-Tetrazol-5-Yl)-
Propenone
Length = 154
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 88 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 131
>pdb|1BIU|A Chain A, Hiv-1 Integrase Core Domain Complexed With Mg++
pdb|1BIU|B Chain B, Hiv-1 Integrase Core Domain Complexed With Mg++
pdb|1BIU|C Chain C, Hiv-1 Integrase Core Domain Complexed With Mg++
Length = 166
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 97 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 140
>pdb|1BIS|B Chain B, Hiv-1 Integrase Core Domain
pdb|1BIS|A Chain A, Hiv-1 Integrase Core Domain
Length = 166
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 97 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 140
>pdb|1B9D|A Chain A, Mobility Of An Hiv-1 Integrase Active Site Loop Is
Correlated With Catalytic Activity
Length = 163
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 94 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 137
>pdb|1HYV|A Chain A, Hiv Integrase Core Domain Complexed With Tetraphenyl
Arsonium
pdb|1HYZ|A Chain A, Hiv Integrase Core Domain Complexed With A Derivative Of
Tetraphenyl Arsonium
Length = 166
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 97 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 140
>pdb|1K6Y|B Chain B, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
pdb|1K6Y|A Chain A, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
pdb|1K6Y|C Chain C, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
pdb|1K6Y|D Chain D, Crystal Structure Of A Two-Domain Fragment Of Hiv-1
Integrase
Length = 288
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 143 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 186
>pdb|1ITG| Hiv-1 Integrase (Catalytic Domain Comprising Residues 50 - 212)
Mutant With Gly-Ser-His Appended To The N-Terminus And
Phe 185 Replaced By Lys (Ins(47-49),F185k)
Length = 166
Score = 24.3 bits (51), Expect = 2.9
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 97 YNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 140
>pdb|1EX4|A Chain A, Hiv-1 Integrase Catalytic Core And C-Terminal Domain
pdb|1EX4|B Chain B, Hiv-1 Integrase Catalytic Core And C-Terminal Domain
Length = 239
Score = 23.9 bits (50), Expect = 3.8
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 94 YNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 137
>pdb|1BHL| Cacodylated Catalytic Domain Of Hiv-1 Integrase
Length = 151
Score = 23.9 bits (50), Expect = 3.8
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 11 FNPKSKEVLEKMNAEKRASLVDEREEVK 38
+NP+S+ V+E MN E + + R++ +
Sbjct: 87 YNPQSQGVIESMNKELKKIIGQVRDQAE 114
>pdb|2ITG| Catalytic Domain Of Hiv-1 Integrase: Ordered Active Site In The
F185h Construct
Length = 163
Score = 23.9 bits (50), Expect = 3.8
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 11 FNPKSKEVLEKMNAEKRASLVDEREEVK 38
+NP+S+ V+E MN E + + R++ +
Sbjct: 94 YNPQSQGVIESMNKELKKIIGQVRDQAE 121
>pdb|1BL3|C Chain C, Catalytic Domain Of Hiv-1 Integrase
pdb|1BI4|C Chain C, Catalytic Domain Of Hiv-1 Integrase
pdb|1BL3|B Chain B, Catalytic Domain Of Hiv-1 Integrase
pdb|1BL3|A Chain A, Catalytic Domain Of Hiv-1 Integrase
pdb|1BI4|A Chain A, Catalytic Domain Of Hiv-1 Integrase
Length = 160
Score = 23.9 bits (50), Expect = 3.8
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 11 FNPKSKEVLEKMNAEKRASLVDEREEVK 38
+NP+S+ V+E MN E + + R++ +
Sbjct: 94 YNPQSQGVIESMNKELKKIIGQVRDQAE 121
>pdb|1EXQ|A Chain A, Crystal Structure Of The Hiv-1 Integrase Catalytic Core
Domain
pdb|1EXQ|B Chain B, Crystal Structure Of The Hiv-1 Integrase Catalytic Core
Domain
Length = 154
Score = 23.9 bits (50), Expect = 3.8
Identities = 13/44 (29%), Positives = 22/44 (49%), Gaps = 3/44 (6%)
Query: 11 FNPKSKEVLEKMNAEKR---ASLVDEREEVKEQANQEAYRPMKK 51
+NP+S+ V+E MN E + + D+ E +K + KK
Sbjct: 88 YNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNKK 131
>pdb|1LLD|A Chain A, L-Lactate Dehydrogenase (E.C.1.1.1.27) (T-State) Mutant
With Cys 199 Replaced By Ser (C199s) Complex With Nadh
pdb|1LLD|B Chain B, L-Lactate Dehydrogenase (E.C.1.1.1.27) (T-State) Mutant
With Cys 199 Replaced By Ser (C199s) Complex With Nadh
pdb|1LTH|R Chain R, Regular Mixture Of 1:1 Complex Of T- And R- State
Tetramers Of L-Lactate Dehydrogenase (E.C.1.1.1.27)
Mutant With Cys 199 Replaced By Ser (C199s)
pdb|1LTH|T Chain T, Regular Mixture Of 1:1 Complex Of T- And R- State
Tetramers Of L-Lactate Dehydrogenase (E.C.1.1.1.27)
Mutant With Cys 199 Replaced By Ser (C199s)
Length = 319
Score = 23.9 bits (50), Expect = 3.8
Identities = 9/30 (30%), Positives = 17/30 (56%)
Query: 32 DEREEVKEQANQEAYRPMKKAANDDYDMGM 61
D+REE+ ++ AY+ + +Y +GM
Sbjct: 213 DKREEIHQEVKNAAYKIINGKGATNYAIGM 242
>pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|M Chain M, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|D Chain D, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 1524
Score = 23.1 bits (48), Expect = 6.4
Identities = 14/37 (37%), Positives = 17/37 (45%), Gaps = 1/37 (2%)
Query: 10 VFNPKSKEVLEKMNAEKRASLVDEREEVKEQANQEAY 46
V +PK VL+ + EKR L DE QE Y
Sbjct: 134 VLDPKGA-VLDGVPVEKRQLLTDEEYRELRYGKQETY 169
>pdb|1CEW|I Chain I, Cystatin
pdb|1A67| Chicken Egg White Cystatin Wildtype, Nmr, 16 Structures
Length = 108
Score = 23.1 bits (48), Expect = 6.4
Identities = 11/27 (40%), Positives = 16/27 (58%)
Query: 31 VDEREEVKEQANQEAYRPMKKAANDDY 57
VDE +E ++A Q A +A+ND Y
Sbjct: 6 VDENDEGLQRALQFAMAEYNRASNDKY 32
>pdb|1A90| Recombinant Mutant Chicken Egg White Cystatin, Nmr, 31
Structures
Length = 108
Score = 23.1 bits (48), Expect = 6.4
Identities = 11/27 (40%), Positives = 16/27 (58%)
Query: 31 VDEREEVKEQANQEAYRPMKKAANDDY 57
VDE +E ++A Q A +A+ND Y
Sbjct: 6 VDENDEGLQRALQFAIAEYNRASNDKY 32
>pdb|1BI4|B Chain B, Catalytic Domain Of Hiv-1 Integrase
Length = 160
Score = 22.7 bits (47), Expect = 8.4
Identities = 8/28 (28%), Positives = 18/28 (63%)
Query: 11 FNPKSKEVLEKMNAEKRASLVDEREEVK 38
+NP+S+ ++E MN E + + R++ +
Sbjct: 94 YNPQSQGLIESMNKELKKIIGQVRDQAE 121
>pdb|1L55| Lysozyme (E.C.3.2.1.17) (Mutant With Cys 54 Replaced By Thr, Asp
92 Replaced By Asn, Cys 97 Replaced By Ala)
(C54T,D92N,C97A)
Length = 164
Score = 22.7 bits (47), Expect = 8.4
Identities = 9/21 (42%), Positives = 15/21 (70%)
Query: 12 NPKSKEVLEKMNAEKRASLVD 32
N K K V + +NA +RA+L++
Sbjct: 81 NAKLKPVYDSLNAVRRAALIN 101
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
0.306 0.124 0.326
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 339,193
Number of Sequences: 13198
Number of extensions: 9701
Number of successful extensions: 33
Number of sequences better than 10.0: 22
Number of HSP's better than 10.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 12
Number of HSP's gapped (non-prelim): 22
length of query: 61
length of database: 2,899,336
effective HSP length: 37
effective length of query: 24
effective length of database: 2,411,010
effective search space: 57864240
effective search space used: 57864240
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (22.0 bits)
S2: 47 (22.7 bits)