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|15645917|ref|NP_208096.1| ribosomal protein L6 (rpl6)
[Helicobacter pylori 26695]
(178 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|1RL6|A Chain A, Ribosomal Protein L6 >gi|6137592|pdb|1C... 145 2e-36
pdb|1EG0|J Chain J, Fitting Of Components With Known Struct... 140 1e-34
pdb|487D|J Chain J, Seven Ribosomal Proteins Fitted To A Cr... 129 1e-31
pdb|1LNR|E Chain E, Crystal Structure Of The Large Ribosoma... 117 6e-28
pdb|1K8A|G Chain G, Co-Crystal Structure Of Carbomycin A Bo... 34 0.008
pdb|1H4H|A Chain A, Oligosaccharide-Binding To Family 11 Xy... 27 1.0
pdb|1H4G|A Chain A, Oligosaccharide-Binding To Family 11 Xy... 27 1.0
pdb|1A16| Aminopeptidase P From E. Coli With The Inhibito... 27 1.8
pdb|1JAW| Aminopeptidase P From E. Coli Low Ph Form 27 1.8
pdb|1AZ9| Aminopeptidase P From E. Coli 27 1.8
pdb|1LSH|A Chain A, Lipid-Protein Interactions In Lipovitellin 26 2.3
pdb|1BF2| Structure Of Pseudomonas Isoamylase 26 2.3
pdb|1L9U|D Chain D, Thermus Aquaticus Rna Polymerase Holoen... 25 3.9
pdb|1B47|A Chain A, Structure Of The N-Terminal Domain Of C... 25 5.1
pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring ... 25 5.1
pdb|2CBL|A Chain A, N-Terminal Domain Of Cbl In Complex Wit... 25 5.1
pdb|1C4Z|A Chain A, Structure Of E6ap: Insights Into Ubiqui... 25 5.1
pdb|1FJG|J Chain J, Structure Of The Thermus Thermophilus 3... 24 8.7
pdb|1J5E|J Chain J, Structure Of The Thermus Thermophilus 3... 24 8.7
pdb|1HNF| Cd2 (Human) 24 8.7
pdb|1BWZ|A Chain A, Diaminopimelate Epimerase From Hemophil... 24 8.7
pdb|1GYA| N-Glycan And Polypeptide Nmr Solution Structure... 24 8.7
>pdb|1RL6|A Chain A, Ribosomal Protein L6
pdb|1C04|B Chain B, Identification Of Known Protein And Rna Structures In A 5
A Map Of The Large Ribosomal Subunit From Haloarcula
Marismortui
pdb|1GIY|H Chain H, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
Length = 177
Score = 145 bits (367), Expect = 2e-36
Identities = 77/177 (43%), Positives = 112/177 (62%), Gaps = 1/177 (0%)
Query: 2 SRIGKRIIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQS 61
SR+GK+ IEIP+ V +V G+ + K K + H + IT+E N ++ ++
Sbjct: 1 SRVGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKHH 60
Query: 62 RAYWGTYGALANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGFSHPVKYPIPAGI 121
RA GT +L N+V G+S G+ K LE+ GVGY+ + K L LS+G+SHPV+ G+
Sbjct: 61 RALHGTTRSLLANMVEGVSKGYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEGL 120
Query: 122 EMVVEKNT-ITIKGSDKQKVGQVAAEIRSFRPPEPYKGKGVKYSDEVIIRKAGKTAK 177
E+ V T I +KG+DKQ+VG++AA IR+ RPPEPYKGKG++Y E++ K GKT K
Sbjct: 121 EIEVPSQTKIIVKGADKQRVGELAANIRAVRPPEPYKGKGIRYEGELVRLKEGKTGK 177
>pdb|1EG0|J Chain J, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
Length = 171
Score = 140 bits (352), Expect = 1e-34
Identities = 73/169 (43%), Positives = 108/169 (63%), Gaps = 1/169 (0%)
Query: 1 MSRIGKRIIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQ 60
MSR+GK+ IEIP+ V +V G+ + K K + H + IT+E N ++ ++
Sbjct: 1 MSRVGKKPIEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKH 60
Query: 61 SRAYWGTYGALANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGFSHPVKYPIPAG 120
RA GT +L N+V G+S G+ K LE+ GVGY+ + K L LS+G+SHPV+ G
Sbjct: 61 HRALHGTTRSLLANMVEGVSKGYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEG 120
Query: 121 IEMVVEKNT-ITIKGSDKQKVGQVAAEIRSFRPPEPYKGKGVKYSDEVI 168
+E+ V T I +KG+DKQ+VG++AA IR+ RPPEPYKGKG++Y E++
Sbjct: 121 LEIEVPSQTKIIVKGADKQRVGELAANIRAVRPPEPYKGKGIRYEGELV 169
>pdb|487D|J Chain J, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
Length = 164
Score = 129 bits (325), Expect = 1e-31
Identities = 68/161 (42%), Positives = 101/161 (62%), Gaps = 1/161 (0%)
Query: 9 IEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQSRAYWGTY 68
IEIP+ V +V G+ + K K + H + IT+E N ++ ++ RA GT
Sbjct: 2 IEIPAGVTVTVNGNTVTVKGPKGELTRTFHPDMTITVEGNVITVTRPSDEKHHRALHGTT 61
Query: 69 GALANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGFSHPVKYPIPAGIEMVVEKN 128
+L N+V G+S G+ K LE+ GVGY+ + K L LS+G+SHPV+ G+E+ V
Sbjct: 62 RSLLANMVEGVSKGYEKALELVGVGYRASKQGKKLVLSVGYSHPVEIEPEEGLEIEVPSQ 121
Query: 129 T-ITIKGSDKQKVGQVAAEIRSFRPPEPYKGKGVKYSDEVI 168
T I +KG+DKQ+VG++AA IR+ RPPEPYKGKG++Y E++
Sbjct: 122 TKIIVKGADKQRVGELAANIRAVRPPEPYKGKGIRYEGELV 162
>pdb|1LNR|E Chain E, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
Length = 185
Score = 117 bits (294), Expect = 6e-28
Identities = 66/175 (37%), Positives = 97/175 (54%), Gaps = 1/175 (0%)
Query: 1 MSRIGKRIIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQ 60
MSRIGK+ I +PS V + + K K + + + + + + +QL + + +
Sbjct: 1 MSRIGKQPIAVPSGVTVNAQDGVFKVKGPKGELTVPYNTELTVRQDGDQLLVERPSDAQK 60
Query: 61 SRAYWGTYGALANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGFSHPVKYPIPAG 120
RA G L N V G+S G++ LE+ GVG++ L K L++++G+SHPV PAG
Sbjct: 61 HRALHGLTRTLVANAVKGVSDGYTINLELRGVGFRAKLTGKALEMNIGYSHPVIIEPPAG 120
Query: 121 IEMVV-EKNTITIKGSDKQKVGQVAAEIRSFRPPEPYKGKGVKYSDEVIIRKAGK 174
+ V E I + G DKQ VGQVAA +R R P+ Y GKGV++ E I KAGK
Sbjct: 121 VTFAVPEPTRIDVSGIDKQLVGQVAANVRKVRKPDAYHGKGVRFVGEQIALKAGK 175
>pdb|1K8A|G Chain G, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|G Chain G, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|G Chain G, Co-Crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|G Chain G, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|G Chain G, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1JJ2|E Chain E, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|E Chain E, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1FFK|1 Chain 1, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
Length = 177
Score = 34.3 bits (77), Expect = 0.008
Identities = 25/116 (21%), Positives = 56/116 (47%), Gaps = 14/116 (12%)
Query: 41 VKITLENNQLSFQPVGEDAQSRAYWGTYGALANNIVIGLSTGFSKTLEV---------NG 91
+ ++++ + + + ++A++ + GT+ + N+ G++ G+ +EV N
Sbjct: 38 IDVSVDGDTVVIESDEDNAKTMSTIGTFQSHIENMFHGVTEGWEYGMEVFYSHFPMQVNV 97
Query: 92 VGYKVALGNKTLDLSLGFSHPVKYPIPAGIEMVVEKNTITIKGSDKQKVGQVAAEI 147
G +V + N LG P + I ++ ++ +T+ G D + VGQ AA+I
Sbjct: 98 EGDEVVIEN-----FLGEKAPRRTTIHGDTDVEIDGEELTVSGPDIEAVGQTAADI 148
>pdb|1H4H|A Chain A, Oligosaccharide-Binding To Family 11 Xylanases: Both
Covalent Intermediate And Mutant-Product Complexes
Display 2,5b Conformations At The Active-Centre
pdb|1H4H|B Chain B, Oligosaccharide-Binding To Family 11 Xylanases: Both
Covalent Intermediate And Mutant-Product Complexes
Display 2,5b Conformations At The Active-Centre
pdb|1H4H|C Chain C, Oligosaccharide-Binding To Family 11 Xylanases: Both
Covalent Intermediate And Mutant-Product Complexes
Display 2,5b Conformations At The Active-Centre
pdb|1H4H|D Chain D, Oligosaccharide-Binding To Family 11 Xylanases: Both
Covalent Intermediate And Mutant-Product Complexes
Display 2,5b Conformations At The Active-Centre
Length = 209
Score = 27.3 bits (59), Expect = 1.0
Identities = 17/55 (30%), Positives = 27/55 (48%), Gaps = 5/55 (9%)
Query: 22 SKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQSRAYWGTYGALANNIV 76
+ +LF+ K+ +E +TH +V N +FQP G AY YG + +V
Sbjct: 44 NNILFRKGKKFNETQTHQQVGNMSINYGANFQPNG-----NAYLCVYGWTVDPLV 93
>pdb|1H4G|A Chain A, Oligosaccharide-Binding To Family 11 Xylanases: Both
Covalent Intermediate And Mutant-Product Complexes
Display 2,5b Conformations At The Active-Centre
pdb|1H4G|B Chain B, Oligosaccharide-Binding To Family 11 Xylanases: Both
Covalent Intermediate And Mutant-Product Complexes
Display 2,5b Conformations At The Active-Centre
pdb|1QH7|A Chain A, Catalysis And Specificity In Enzymatic Glycoside
Hydrolases: A 2,5b Conformation For The Glycosyl-Enzyme
Intermidiate Revealed By The Structure Of The Bacillus
Agaradhaerens Family 11 Xylanase
pdb|1QH7|B Chain B, Catalysis And Specificity In Enzymatic Glycoside
Hydrolases: A 2,5b Conformation For The Glycosyl-Enzyme
Intermidiate Revealed By The Structure Of The Bacillus
Agaradhaerens Family 11 Xylanase
pdb|1QH6|A Chain A, Catalysis And Specificity In Enzymatic Glycoside
Hydrolases: A 2,5b Conformation For The Glycosyl-Enzyme
Intermidiate Revealed By The Structure Of The Bacillus
Agaradhaerens Family 11 Xylanase
pdb|1QH6|B Chain B, Catalysis And Specificity In Enzymatic Glycoside
Hydrolases: A 2,5b Conformation For The Glycosyl-Enzyme
Intermidiate Revealed By The Structure Of The Bacillus
Agaradhaerens Family 11 Xylanase
Length = 207
Score = 27.3 bits (59), Expect = 1.0
Identities = 17/55 (30%), Positives = 27/55 (48%), Gaps = 5/55 (9%)
Query: 22 SKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQSRAYWGTYGALANNIV 76
+ +LF+ K+ +E +TH +V N +FQP G AY YG + +V
Sbjct: 44 NNILFRKGKKFNETQTHQQVGNMSINYGANFQPNG-----NAYLCVYGWTVDPLV 93
>pdb|1A16| Aminopeptidase P From E. Coli With The Inhibitor Pro-Leu
Length = 440
Score = 26.6 bits (57), Expect = 1.8
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 153 PEPYKGKGVKYSDEVIIRKAG 173
PE Y+G G++ D+++I + G
Sbjct: 395 PEQYRGIGIRIEDDIVITETG 415
>pdb|1JAW| Aminopeptidase P From E. Coli Low Ph Form
Length = 440
Score = 26.6 bits (57), Expect = 1.8
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 153 PEPYKGKGVKYSDEVIIRKAG 173
PE Y+G G++ D+++I + G
Sbjct: 395 PEQYRGIGIRIEDDIVITETG 415
>pdb|1AZ9| Aminopeptidase P From E. Coli
Length = 457
Score = 26.6 bits (57), Expect = 1.8
Identities = 8/21 (38%), Positives = 15/21 (71%)
Query: 153 PEPYKGKGVKYSDEVIIRKAG 173
PE Y+G G++ D+++I + G
Sbjct: 412 PEQYRGIGIRIEDDIVITETG 432
>pdb|1LSH|A Chain A, Lipid-Protein Interactions In Lipovitellin
Length = 1056
Score = 26.2 bits (56), Expect = 2.3
Identities = 20/58 (34%), Positives = 28/58 (47%), Gaps = 6/58 (10%)
Query: 5 GKRIIEIPSSVQASVEGSKLLFKNSKEKHELETHNRVKITLENNQLSFQPVGEDAQSR 62
G + + PSS + LF + E E H +K +ENNQLS V EDA ++
Sbjct: 261 GGLMYKFPSSAITKMSS---LFVTKGKNLESEIHTVLKHLVENNQLS---VHEDAPAK 312
>pdb|1BF2| Structure Of Pseudomonas Isoamylase
Length = 750
Score = 26.2 bits (56), Expect = 2.3
Identities = 15/52 (28%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 63 AYWGTYGALANNIVIGLSTGFSKTLEVNGVGYKVA--LGNKTLDLSLGFSHP 112
A + TY +A N+++ ++ T+ V+G + +A LGN L+ + S P
Sbjct: 343 ANFNTYNTVAQNLIVDSLAYWANTMGVDGFRFDLASVLGNSCLNGAYTASAP 394
>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 = 25.4 bits (54), Expect = 3.9
Identities = 8/22 (36%), Positives = 15/22 (67%)
Query: 115 YPIPAGIEMVVEKNTITIKGSD 136
YP+PAG++ +V+ +KG +
Sbjct: 169 YPLPAGVDALVKDGEEVVKGQE 190
>pdb|1B47|A Chain A, Structure Of The N-Terminal Domain Of Cbl In Complex With
Its Binding Site In Zap-70
pdb|1B47|C Chain C, Structure Of The N-Terminal Domain Of Cbl In Complex With
Its Binding Site In Zap-70
pdb|1B47|B Chain B, Structure Of The N-Terminal Domain Of Cbl In Complex With
Its Binding Site In Zap-70
Length = 304
Score = 25.0 bits (53), Expect = 5.1
Identities = 17/61 (27%), Positives = 30/61 (48%), Gaps = 2/61 (3%)
Query: 94 YKVALGNKTLDLSLGFSHPVK--YPIPAGIEMVVEKNTITIKGSDKQKVGQVAAEIRSFR 151
++ A G KT+ F + +PI +G+E + K+TI + +D V + R F+
Sbjct: 144 WRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQ 203
Query: 152 P 152
P
Sbjct: 204 P 204
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 25.0 bits (53), Expect = 5.1
Identities = 17/61 (27%), Positives = 30/61 (48%), Gaps = 2/61 (3%)
Query: 94 YKVALGNKTLDLSLGFSHPVK--YPIPAGIEMVVEKNTITIKGSDKQKVGQVAAEIRSFR 151
++ A G KT+ F + +PI +G+E + K+TI + +D V + R F+
Sbjct: 144 WRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQ 203
Query: 152 P 152
P
Sbjct: 204 P 204
>pdb|2CBL|A Chain A, N-Terminal Domain Of Cbl In Complex With Its Binding Site
On Zap-70
Length = 305
Score = 25.0 bits (53), Expect = 5.1
Identities = 17/61 (27%), Positives = 30/61 (48%), Gaps = 2/61 (3%)
Query: 94 YKVALGNKTLDLSLGFSHPVK--YPIPAGIEMVVEKNTITIKGSDKQKVGQVAAEIRSFR 151
++ A G KT+ F + +PI +G+E + K+TI + +D V + R F+
Sbjct: 144 WRKAFGEKTIVPWKSFRQALHEVHPISSGLEAMALKSTIDLTCNDYISVFEFDIFTRLFQ 203
Query: 152 P 152
P
Sbjct: 204 P 204
>pdb|1C4Z|A Chain A, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|B Chain B, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1C4Z|C Chain C, Structure Of E6ap: Insights Into Ubiquitination Pathway
pdb|1D5F|A Chain A, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|B Chain B, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
pdb|1D5F|C Chain C, Structure Of An E6ap-Ubch7 Complex: Insights Into The
Ubiquitination Pathway
Length = 358
Score = 25.0 bits (53), Expect = 5.1
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 75 IVIGLSTGFSKTLEVNG--VGYKVALGNKTLDLSLGFSHPVKY 115
IV+GL+ + L+V+ V Y+ +G K LG SHPV Y
Sbjct: 100 IVLGLAIYNNCILDVHFPMVVYRKLMGKKGTFRDLGDSHPVLY 142
>pdb|1FJG|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin And Paromomycin
pdb|1IBL|J Chain J, 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|1HR0|J Chain J, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNZ|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1IBM|J Chain J, 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|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1HNW|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1JGQ|M Chain M, 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|M Chain M, 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|M Chain M, 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|M Chain M, 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 = 105
Score = 24.3 bits (51), Expect = 8.7
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 27 KNSKEKHELETHNRVKITLENNQLSFQ 53
K+S+E EL THNR+ + N+ + +
Sbjct: 57 KDSREHFELRTHNRLVDIINPNRKTIE 83
>pdb|1J5E|J Chain J, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1I94|J Chain J, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I96|J Chain J, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|J Chain J, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|1I95|J Chain J, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
Length = 104
Score = 24.3 bits (51), Expect = 8.7
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 27 KNSKEKHELETHNRVKITLENNQLSFQ 53
K+S+E EL THNR+ + N+ + +
Sbjct: 56 KDSREHFELRTHNRLVDIINPNRKTIE 82
>pdb|1HNF| Cd2 (Human)
Length = 182
Score = 24.3 bits (51), Expect = 8.7
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 133 KGSDKQKVGQVAAEIRSFRPPEPYK 157
K SDK+K+ Q E +F+ + YK
Sbjct: 37 KTSDKKKIAQFRKEKETFKEKDTYK 61
>pdb|1BWZ|A Chain A, Diaminopimelate Epimerase From Hemophilus Influenzae
Length = 274
Score = 24.3 bits (51), Expect = 8.7
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 69 GALANNIVIGLSTGFSKTLEVNGVGYKVALGNKTLDLSLGF 109
G L NN+ + L G S +E NGVG+ + + + + GF
Sbjct: 232 GLLNNNVQVDLPGG-SLMIEWNGVGHPLYMTGEATHIYDGF 271
>pdb|1GYA| N-Glycan And Polypeptide Nmr Solution Structures Of The Adhesion
Domain Of Human Cd2
Length = 105
Score = 24.3 bits (51), Expect = 8.7
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 133 KGSDKQKVGQVAAEIRSFRPPEPYK 157
K SDK+K+ Q E +F+ + YK
Sbjct: 37 KTSDKKKIAQFRKEKETFKEKDTYK 61
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
0.312 0.132 0.364
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,012,736
Number of Sequences: 13198
Number of extensions: 40148
Number of successful extensions: 92
Number of sequences better than 10.0: 22
Number of HSP's better than 10.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 70
Number of HSP's gapped (non-prelim): 22
length of query: 178
length of database: 2,899,336
effective HSP length: 82
effective length of query: 96
effective length of database: 1,817,100
effective search space: 174441600
effective search space used: 174441600
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 51 (24.3 bits)