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|15645700|ref|NP_207877.1| hemolysin (tly)
[Helicobacter pylori 26695]
(235 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|1FJG|D Chain D, Structure Of The Thermus Thermophilus 3... 35 0.006
pdb|1J5E|D Chain D, Structure Of The Thermus Thermophilus 3... 35 0.006
pdb|1IBL|D Chain D, Structure Of The Thermus Thermophilus 3... 35 0.006
pdb|1F3L|A Chain A, Crystal Structure Of The Conserved Core... 35 0.006
pdb|1G6Q|1 Chain 1, Crystal Structure Of Yeast Arginine Met... 34 0.017
pdb|1EG0|A Chain A, Fitting Of Components With Known Struct... 29 0.54
pdb|1EJ0|A Chain A, Ftsj Rna Methyltransferase Complexed Wi... 29 0.54
pdb|1ESG|B Chain B, Restriction Endonuclease Bamhi Bound To... 27 1.6
pdb|1C4P|A Chain A, Beta Domain Of Streptokinase >gi|643573... 25 7.8
pdb|1FIZ|A Chain A, Three Dimensional Structure Of Beta-Acr... 25 7.8
pdb|1QQR|C Chain C, Crystal Structure Of Streptokinase Doma... 25 7.8
pdb|1BML|C Chain C, Complex Of The Catalytic Domain Of Huma... 25 7.8
>pdb|1FJG|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1HR0|D Chain D, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1JGQ|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1GIX|G Chain G, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1JGO|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|G Chain G, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
Length = 209
Score = 35.4 bits (80), Expect = 0.006
Identities = 27/86 (31%), Positives = 39/86 (44%), Gaps = 10/86 (11%)
Query: 2 RLDYALFSQHLVNSREKAKALVLKNQVLVNKMVVSKPSFIVKENDKI---------ELIA 52
RLD ++ SR +A+ LV + VN V PS+ V+ D+I ELI
Sbjct: 100 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIR 159
Query: 53 EKLFVSRAGEKLGAFLETHFVDFKGK 78
+ L + G K+G +L KGK
Sbjct: 160 QNLEAMK-GRKVGPWLSLDVEGMKGK 184
>pdb|1J5E|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1I94|D Chain D, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|D Chain D, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 208
Score = 35.4 bits (80), Expect = 0.006
Identities = 27/86 (31%), Positives = 39/86 (44%), Gaps = 10/86 (11%)
Query: 2 RLDYALFSQHLVNSREKAKALVLKNQVLVNKMVVSKPSFIVKENDKI---------ELIA 52
RLD ++ SR +A+ LV + VN V PS+ V+ D+I ELI
Sbjct: 99 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIR 158
Query: 53 EKLFVSRAGEKLGAFLETHFVDFKGK 78
+ L + G K+G +L KGK
Sbjct: 159 QNLEAMK-GRKVGPWLSLDVEGMKGK 183
>pdb|1IBL|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1HNZ|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1IBK|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|D Chain D, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1FKA|D Chain D, Structure Of Functionally Activated Small Ribosomal
Subunit At 3.3 A Resolution
Length = 209
Score = 35.4 bits (80), Expect = 0.006
Identities = 27/86 (31%), Positives = 39/86 (44%), Gaps = 10/86 (11%)
Query: 2 RLDYALFSQHLVNSREKAKALVLKNQVLVNKMVVSKPSFIVKENDKI---------ELIA 52
RLD ++ SR +A+ LV + VN V PS+ V+ D+I ELI
Sbjct: 100 RLDNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEKSRNLELIR 159
Query: 53 EKLFVSRAGEKLGAFLETHFVDFKGK 78
+ L + G K+G +L KGK
Sbjct: 160 QNLEAMK-GRKVGPWLSLDVEGMKGK 184
>pdb|1F3L|A Chain A, Crystal Structure Of The Conserved Core Of Protein
Arginine Methyltransferase Prmt3
Length = 321
Score = 35.4 bits (80), Expect = 0.006
Identities = 18/32 (56%), Positives = 20/32 (62%)
Query: 75 FKGKVVLDVGASKGGFSQVALLKGAKRVLCVD 106
FK KVVLDVG G S A GAK+V+ VD
Sbjct: 44 FKDKVVLDVGCGTGILSMFAAKAGAKKVIAVD 75
>pdb|1G6Q|1 Chain 1, Crystal Structure Of Yeast Arginine Methyltransferase,
Hmt1
pdb|1G6Q|5 Chain 5, Crystal Structure Of Yeast Arginine Methyltransferase,
Hmt1
pdb|1G6Q|2 Chain 2, Crystal Structure Of Yeast Arginine Methyltransferase,
Hmt1
pdb|1G6Q|6 Chain 6, Crystal Structure Of Yeast Arginine Methyltransferase,
Hmt1
pdb|1G6Q|3 Chain 3, Crystal Structure Of Yeast Arginine Methyltransferase,
Hmt1
pdb|1G6Q|4 Chain 4, Crystal Structure Of Yeast Arginine Methyltransferase,
Hmt1
Length = 328
Score = 33.9 bits (76), Expect = 0.017
Identities = 17/36 (47%), Positives = 21/36 (58%)
Query: 75 FKGKVVLDVGASKGGFSQVALLKGAKRVLCVDVGKM 110
FK K+VLDVG G S A GAK V+ VD+ +
Sbjct: 37 FKDKIVLDVGCGTGILSMFAAKHGAKHVIGVDMSSI 72
>pdb|1EG0|A Chain A, Fitting Of Components With Known Structure Into An 11.5
A Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|1C05|A Chain A, Solution Structure Of Ribosomal Protein S4 Delta 41,
Refined With Dipolar Couplings (Minimized Average
Structure
pdb|1C06|A Chain A, Solution Structure Of Ribosomal Protein S4 Delta 41,
Refined With Dipolar Couplings (Ensemble Of 16
Structures)
pdb|1QD7|C Chain C, Partial Model For 30s Ribosomal Subunit
Length = 159
Score = 28.9 bits (63), Expect = 0.54
Identities = 16/47 (34%), Positives = 25/47 (53%)
Query: 2 RLDYALFSQHLVNSREKAKALVLKNQVLVNKMVVSKPSFIVKENDKI 48
RLD ++ L +R +A+ LV +LV+ V+ PS+ VK I
Sbjct: 52 RLDNLVYRLGLARTRRQARQLVTHGHILVDGSRVNIPSYRVKPGQTI 98
>pdb|1EJ0|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine, Mercury Derivative
pdb|1EIZ|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine
Length = 180
Score = 28.9 bits (63), Expect = 0.54
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 58 SRAGEKLGAFLETHFVDFKGKVVLDVGASKGGFSQ--VALLKGAKRVLCVDV 107
SRA KL ++ + G V+D+GA+ GG+SQ V + G R++ D+
Sbjct: 4 SRAWFKLDEIQQSDKLFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDL 55
>pdb|1ESG|B Chain B, Restriction Endonuclease Bamhi Bound To A Non-Specific
Dna.
pdb|2BAM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna And
Calcium Ions (Pre-Reactive Complex).
pdb|1ESG|A Chain A, Restriction Endonuclease Bamhi Bound To A Non-Specific
Dna.
pdb|3BAM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna And
Manganese Ions (Post-Reactive Complex)
pdb|2BAM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna And
Calcium Ions (Pre-Reactive Complex).
pdb|3BAM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna And
Manganese Ions (Post-Reactive Complex)
pdb|1BHM|B Chain B, Restriction Endonuclease Bamhi Complex With Dna
pdb|1BAM| Restriction Endonuclease Bamhi (E.C.3.1.21.4)
pdb|1BHM|A Chain A, Restriction Endonuclease Bamhi Complex With Dna
Length = 213
Score = 27.3 bits (59), Expect = 1.6
Identities = 17/53 (32%), Positives = 26/53 (48%), Gaps = 4/53 (7%)
Query: 180 KRNKKGVVVDKEAILNALENFKNHLKTKDFQILKIQESLVKGKNGNVEFFIHF 232
++N GVV KE LE+ N + K ILK++ K K G ++ + F
Sbjct: 51 EKNCNGVVPIKELCYTLLEDTYNWYREKPLDILKLE----KKKGGPIDVYKEF 99
>pdb|1C4P|A Chain A, Beta Domain Of Streptokinase
pdb|1C4P|B Chain B, Beta Domain Of Streptokinase
pdb|1C4P|C Chain C, Beta Domain Of Streptokinase
pdb|1C4P|D Chain D, Beta Domain Of Streptokinase
Length = 137
Score = 25.0 bits (53), Expect = 7.8
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 35 VSKPSFIVKENDKIELIAEKLFVSRAGEK 63
++K S + +E + +LI+EK +V + GEK
Sbjct: 106 INKKSGLNEEINNTDLISEKYYVLKKGEK 134
>pdb|1FIZ|A Chain A, Three Dimensional Structure Of Beta-Acrosin From Boar
Spermatozoa
Length = 263
Score = 25.0 bits (53), Expect = 7.8
Identities = 12/43 (27%), Positives = 23/43 (52%)
Query: 185 GVVVDKEAILNALENFKNHLKTKDFQILKIQESLVKGKNGNVE 227
G++++ +L A FKN K D++++ +V G N V+
Sbjct: 34 GILLNSHWVLTAAHCFKNKKKVTDWRLIFGANEVVWGSNKPVK 76
>pdb|1QQR|C Chain C, Crystal Structure Of Streptokinase Domain B
pdb|1QQR|D Chain D, Crystal Structure Of Streptokinase Domain B
pdb|1QQR|A Chain A, Crystal Structure Of Streptokinase Domain B
pdb|1QQR|B Chain B, Crystal Structure Of Streptokinase Domain B
Length = 138
Score = 25.0 bits (53), Expect = 7.8
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 35 VSKPSFIVKENDKIELIAEKLFVSRAGEK 63
++K S + +E + +LI+EK +V + GEK
Sbjct: 104 INKKSGLNEEINNTDLISEKYYVLKKGEK 132
>pdb|1BML|C Chain C, Complex Of The Catalytic Domain Of Human Plasmin And
Streptokinase
pdb|1BML|D Chain D, Complex Of The Catalytic Domain Of Human Plasmin And
Streptokinase
Length = 362
Score = 25.0 bits (53), Expect = 7.8
Identities = 11/29 (37%), Positives = 20/29 (68%)
Query: 35 VSKPSFIVKENDKIELIAEKLFVSRAGEK 63
++K S + +E + +LI+EK +V + GEK
Sbjct: 243 INKKSGLNEEINNTDLISEKYYVLKKGEK 271
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
0.322 0.140 0.389
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,230,080
Number of Sequences: 13198
Number of extensions: 47668
Number of successful extensions: 107
Number of sequences better than 10.0: 12
Number of HSP's better than 10.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 95
Number of HSP's gapped (non-prelim): 12
length of query: 235
length of database: 2,899,336
effective HSP length: 85
effective length of query: 150
effective length of database: 1,777,506
effective search space: 266625900
effective search space used: 266625900
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: 53 (25.0 bits)