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|15645141|ref|NP_207311.1| ribosomal protein L9 (rpl9)
[Helicobacter pylori 26695]
(150 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|487D|K Chain K, Seven Ribosomal Proteins Fitted To A Cr... 103 8e-24
pdb|1LNR|F Chain F, Crystal Structure Of The Large Ribosoma... 70 8e-14
pdb|1CQU|A Chain A, Solution Structure Of The N-Terminal Do... 46 2e-06
pdb|1FXK|B Chain B, Crystal Structure Of Archaeal Prefoldin... 30 0.15
pdb|1FXK|A Chain A, Crystal Structure Of Archaeal Prefoldin... 29 0.20
pdb|1IRU|D Chain D, Crystal Structure Of The Mammalian 20s ... 28 0.34
pdb|1C8B|A Chain A, Crystal Structure Of A Novel Germinatio... 28 0.58
pdb|1G5Z|A Chain A, Crystal Structure Of Lyme Disease Antig... 27 1.3
pdb|1CQ3|A Chain A, Structure Of A Soluble Secreted Chemoki... 26 1.7
pdb|1FS9|A Chain A, Cytochrome C Nitrite Reductase From Wol... 25 2.9
pdb|1FS8|A Chain A, Cytochrome C Nitrite Reductase From Wol... 25 2.9
pdb|1L1L|A Chain A, Crystal Structure Of B-12 Dependent (Cl... 25 3.8
pdb|154L| Lysozyme (E.C.3.2.1.17) >gi|999633|pdb|153L| L... 25 3.8
pdb|1CKR|A Chain A, High Resolution Solution Structure Of T... 24 6.5
pdb|1F66|G Chain G, 2.6 A Crystal Structure Of A Nucleosome... 24 6.5
pdb|1JRY|A Chain A, Crystal Structure Of Arg402lys Mutant F... 24 8.4
pdb|1QRH|A Chain A, X-Ray Structure Of The Dna-Eco Ri Endon... 24 8.4
pdb|1A87| Colicin N 24 8.4
>pdb|487D|K Chain K, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
pdb|1DIV| Ribosomal Protein L9
pdb|1GIY|K Chain K, 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 = 149
Score = 103 bits (257), Expect = 8e-24
Identities = 60/149 (40%), Positives = 84/149 (56%), Gaps = 1/149 (0%)
Query: 2 MKVLLLEDVKNLGKAGEVCEVKDGYGNNFLIANQKAKLATNEVINKYKAEVKKKAEKEAL 61
MKV+ L+DVK GK GE+ V DGY NNFL A AT + +A+ +K+ + A
Sbjct: 1 MKVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKEQRQAAE 60
Query: 62 EKAQKLQMVETLQTITLTIHKKVGANGSLFGAITKEEITERLKEQHASLNLDKKDIELKH 121
E A ++ E L+ +T+TI K G G LFG+IT ++I E L+ QH L LDK+ IEL
Sbjct: 61 ELANAKKLKEQLEKLTVTIPAKAGEGGRLFGSITSKQIAESLQAQH-GLKLDKRKIELAD 119
Query: 122 PIKSTGIYEIEVKLGSGVVGVFKIDVVAE 150
I++ G + VKL V K+ V +
Sbjct: 120 AIRALGYTNVPVKLHPEVTATLKVHVTEQ 148
>pdb|1LNR|F Chain F, Crystal Structure Of The Large Ribosomal Subunit From
Deinococcus Radiodurans
Length = 146
Score = 70.5 bits (171), Expect = 8e-14
Identities = 44/148 (29%), Positives = 78/148 (51%), Gaps = 4/148 (2%)
Query: 2 MKVLLLEDVKNLGKAGEVCEVKDGYGNNFLIANQKAKLATNEVINKYKAEVKKKAEKEAL 61
M+V+LLE + LGK GEV VKDGY N+LI A AT + +A+++ +++A
Sbjct: 1 MQVILLEPSR-LGKTGEVVSVKDGYARNWLIPQGLAVSATRTNMKTLEAQLRSIEKRQAQ 59
Query: 62 EKAQKLQMVETLQTITLTIHKKVGANGSLFGAITKEEITERLKEQHASLNLDKKDIELKH 121
EKA + L + + + + G G ++GA+T +++ L + ++D++ I++
Sbjct: 60 EKAVAEDLASRLNGVAVELSVRAG-EGKIYGAVTHQDVANSLDQ--LGFDVDRRKIDMPK 116
Query: 122 PIKSTGIYEIEVKLGSGVVGVFKIDVVA 149
+K G Y+I + V K+ V A
Sbjct: 117 TVKEVGEYDIAYRAHPEVTIPMKLVVHA 144
>pdb|1CQU|A Chain A, Solution Structure Of The N-Terminal Domain Of Ribosomal
Protein L9
Length = 56
Score = 45.8 bits (107), Expect = 2e-06
Identities = 24/54 (44%), Positives = 32/54 (58%)
Query: 2 MKVLLLEDVKNLGKAGEVCEVKDGYGNNFLIANQKAKLATNEVINKYKAEVKKK 55
MKV+ L+DVK GK GE+ V DGY NNFL A AT + +A+ +K+
Sbjct: 1 MKVIFLKDVKGKGKKGEIKNVADGYANNFLFKQGLAIEATPANLKALEAQKQKE 54
>pdb|1FXK|B Chain B, Crystal Structure Of Archaeal Prefoldin (Gimc)
Length = 109
Score = 29.6 bits (65), Expect = 0.15
Identities = 15/56 (26%), Positives = 30/56 (52%)
Query: 86 ANGSLFGAITKEEITERLKEQHASLNLDKKDIELKHPIKSTGIYEIEVKLGSGVVG 141
++G++ + K+E+TE L+E+ +L L +K IE + + E +V + G
Sbjct: 52 SSGNILIRVAKDELTEELQEKLETLQLREKTIERQEERVXKKLQEXQVNIQEAXKG 107
>pdb|1FXK|A Chain A, Crystal Structure Of Archaeal Prefoldin (Gimc)
Length = 107
Score = 29.3 bits (64), Expect = 0.20
Identities = 14/50 (28%), Positives = 29/50 (58%)
Query: 86 ANGSLFGAITKEEITERLKEQHASLNLDKKDIELKHPIKSTGIYEIEVKL 135
++G++ + K+E+TE L+E+ +L L +K IE + + E +V +
Sbjct: 53 SSGNILIRVAKDELTEELQEKLETLQLREKTIERQEERVXKKLQEXQVNI 102
>pdb|1IRU|D Chain D, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
pdb|1IRU|R Chain R, Crystal Structure Of The Mammalian 20s Proteasome At 2.75
A Resolution
Length = 248
Score = 28.5 bits (62), Expect = 0.34
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 21 EVKDGYGNNFLIA----NQKAKLATNEVINKYKAEVKKKAEKEALEKAQK 66
EV G N +A +Q K+ E I KY AE++K+ E+ +K +K
Sbjct: 197 EVVQSGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKEKEENEKKKQKK 246
>pdb|1C8B|A Chain A, Crystal Structure Of A Novel Germination Protease From
Spores Of Bacillus Megaterium: Structural Rearrangements
And Zymogen Activation
pdb|1C8B|B Chain B, Crystal Structure Of A Novel Germination Protease From
Spores Of Bacillus Megaterium: Structural Rearrangements
And Zymogen Activation
Length = 371
Score = 27.7 bits (60), Expect = 0.58
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 49 KAEVKKKAEKEALEKAQKLQMVETLQTITLTIHKKVGANGSLFGAITKEEITERLKE 105
++E+K KE E+ K+ MVE + I KK G +L +E+ TE+ +E
Sbjct: 34 QSEIKGVIVKEKEEQGVKISMVEITEEGAEAIGKKKGRYVTLESVGIREQDTEKQEE 90
>pdb|1G5Z|A Chain A, Crystal Structure Of Lyme Disease Antigen Outer Surface
Protein C (Ospc) From Borrelia Burgdorferi Strain N40
Length = 164
Score = 26.6 bits (57), Expect = 1.3
Identities = 16/42 (38%), Positives = 21/42 (49%), Gaps = 7/42 (16%)
Query: 98 EITERLKEQHASLNLD-------KKDIELKHPIKSTGIYEIE 132
E T +LK +HA L LD ++ I KH K G E+E
Sbjct: 93 EFTNKLKSEHAVLGLDNLTDDNAQRAILKKHANKDKGAAELE 134
>pdb|1CQ3|A Chain A, Structure Of A Soluble Secreted Chemokine Inhibitor, Vcci,
From Cowpox Virus
pdb|1CQ3|B Chain B, Structure Of A Soluble Secreted Chemokine Inhibitor, Vcci,
From Cowpox Virus
Length = 233
Score = 26.2 bits (56), Expect = 1.7
Identities = 18/57 (31%), Positives = 31/57 (53%), Gaps = 9/57 (15%)
Query: 93 AITKEEITERLKEQHASLNL----DKKDIELK-HPIKSTGIYEIEVK----LGSGVV 140
AIT+EE +K+ S+N+ ++KD +K HP+ + I +V +GS +V
Sbjct: 120 AITREEALSMIKDCEMSINIKCSEEEKDSNIKTHPVLGSNISHKKVSYEDIIGSTIV 176
>pdb|1FS9|A Chain A, Cytochrome C Nitrite Reductase From Wolinella
Succinogenes- Azide Complex
Length = 507
Score = 25.4 bits (54), Expect = 2.9
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 35 QKAKLATNEVINKYKAEVKKKAEKEALEKAQKLQMVE 71
QKA++ +V+ KY A + E EKAQKL V+
Sbjct: 422 QKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 458
>pdb|1FS8|A Chain A, Cytochrome C Nitrite Reductase From Wolinella
Succinogenes- Sulfate Complex
pdb|1FS7|A Chain A, Cytochrome C Nitrite Reductase From Wolinella Succinogenes
Length = 485
Score = 25.4 bits (54), Expect = 2.9
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 35 QKAKLATNEVINKYKAEVKKKAEKEALEKAQKLQMVE 71
QKA++ +V+ KY A + E EKAQKL V+
Sbjct: 400 QKARIKLVKVLAKYGAIDYVAPDFETKEKAQKLAKVD 436
>pdb|1L1L|A Chain A, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|B Chain B, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|C Chain C, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
pdb|1L1L|D Chain D, Crystal Structure Of B-12 Dependent (Class Ii)
Ribonucleotide Reductase
Length = 739
Score = 25.0 bits (53), Expect = 3.8
Identities = 11/23 (47%), Positives = 16/23 (68%)
Query: 97 EEITERLKEQHASLNLDKKDIEL 119
+EIT ++E + LN D KD+EL
Sbjct: 703 QEITGNVEEVFSQLNSDVKDLEL 725
>pdb|154L| Lysozyme (E.C.3.2.1.17)
pdb|153L| Lysozyme (E.C.3.2.1.17)
Length = 185
Score = 25.0 bits (53), Expect = 3.8
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 2/58 (3%)
Query: 9 DVKNLGKAGEVCEVKDGYGNNFLIANQKAKLATNEV--INKYKAEVKKKAEKEALEKA 64
+V + G C+ G ++ + K+A ++ +++YK +KK EK +E A
Sbjct: 7 NVNRIDTTGASCKTAKPEGLSYCGVSASKKIAERDLQAMDRYKTIIKKVGEKLCVEPA 64
>pdb|1CKR|A Chain A, High Resolution Solution Structure Of The Heat Shock
Cognate-70 Kd Substrate Binding Domain Obtained By
Multidimensional Nmr Techniques
pdb|7HSC|A Chain A, High Resolution Solution Structure Of The Heat Shock
Cognate-70 Kd Substrate Binding Domain Obtained By
Multidimensional Nmr Techniques
Length = 159
Score = 24.3 bits (51), Expect = 6.5
Identities = 13/40 (32%), Positives = 20/40 (49%), Gaps = 6/40 (15%)
Query: 25 GYGNNFLIANQKAKLATNEV------INKYKAEVKKKAEK 58
G N I N K +L+ ++ KYKAE +K+ +K
Sbjct: 112 GKENKITITNDKGRLSKEDIERMVQEAEKYKAEDEKQRDK 151
>pdb|1F66|G Chain G, 2.6 A Crystal Structure Of A Nucleosome Core Particle
Containing The Variant Histone H2a.Z
pdb|1F66|C Chain C, 2.6 A Crystal Structure Of A Nucleosome Core Particle
Containing The Variant Histone H2a.Z
Length = 128
Score = 24.3 bits (51), Expect = 6.5
Identities = 20/75 (26%), Positives = 37/75 (48%), Gaps = 8/75 (10%)
Query: 55 KAEKEALEKAQKLQMVETLQTI------TLTIHKKVGANGSLFGAITKEEITERLKE--Q 106
KA+ +A+ ++Q+ + + I T H +VGA +++ A E +T + E
Sbjct: 12 KAKTKAVSRSQRAGLQFPVGRIHRHLKSRTTSHGRVGATAAVYSAAILEYLTAEVLELAG 71
Query: 107 HASLNLDKKDIELKH 121
+AS +L K I +H
Sbjct: 72 NASKDLKVKRITPRH 86
>pdb|1JRY|A Chain A, Crystal Structure Of Arg402lys Mutant Flavocytochrome C3
From Shewanella Frigidimarina
pdb|1JRY|B Chain B, Crystal Structure Of Arg402lys Mutant Flavocytochrome C3
From Shewanella Frigidimarina
Length = 571
Score = 23.9 bits (50), Expect = 8.4
Identities = 35/141 (24%), Positives = 57/141 (39%), Gaps = 22/141 (15%)
Query: 27 GNNFLIANQKAKLATNEVINKYKAEVKKKAEKEALEKAQKLQMVETLQTITLTIHKKVGA 86
GN ++ N++ K NE+ K KA A+ K+ L ++++ I K +G
Sbjct: 382 GNGAILVNREGKRFVNEITTKDKASAAILAQ---TGKSAYLIFDDSVRKSLSKIDKYIGL 438
Query: 87 N-----------GSLFGAITKEEITERLKEQHASLNLDKKDIELKHP-----IKSTGIYE 130
G + G I + +TE + ++ SL KD + + P + Y
Sbjct: 439 GVAPTADSLVKLGKMEG-IDGKALTETV-ARYNSLVSSGKDTDFERPNLPRALNEGNYYA 496
Query: 131 IEVKLG-SGVVGVFKIDVVAE 150
IEV G +G ID AE
Sbjct: 497 IEVTPGVHHTMGGVMIDTKAE 517
>pdb|1QRH|A Chain A, X-Ray Structure Of The Dna-Eco Ri Endonuclease Complexes
With An R145k Mutation At 2.7 A
Length = 261
Score = 23.9 bits (50), Expect = 8.4
Identities = 17/57 (29%), Positives = 30/57 (51%), Gaps = 7/57 (12%)
Query: 17 GEVCEVKDGYGNNFLIANQKAKLATNEVIN-KYKAEVKKKAEKE------ALEKAQK 66
G + EVKD YG ++ +AK ++IN + V K+ +++ A+EK+ K
Sbjct: 76 GGIVEVKDDYGEWRVVLVAEAKHQGKDIINIRNGLLVGKRGDQDLMAAGNAIEKSHK 132
>pdb|1A87| Colicin N
Length = 321
Score = 23.9 bits (50), Expect = 8.4
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 48 YKAEVKKKAEKEALEKAQKL 67
++ E K+K EKEAL KA +L
Sbjct: 117 FRKEEKEKNEKEALLKASEL 136
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
0.311 0.132 0.342
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 787,658
Number of Sequences: 13198
Number of extensions: 27842
Number of successful extensions: 77
Number of sequences better than 10.0: 18
Number of HSP's better than 10.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 65
Number of HSP's gapped (non-prelim): 18
length of query: 150
length of database: 2,899,336
effective HSP length: 80
effective length of query: 70
effective length of database: 1,843,496
effective search space: 129044720
effective search space used: 129044720
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: 50 (23.9 bits)