BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 032124
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZ6|S Chain S, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 146
Score = 192 bits (489), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 89/131 (67%), Positives = 106/131 (80%)
Query: 3 TAKNVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPDWYYIRAASMA 62
TA+ VKDV+PHEFVKAY+AHLKRSGK+ELP W DIVKT KEL PYDPDWYY RAAS+A
Sbjct: 5 TARTVKDVNPHEFVKAYSAHLKRSGKMELPEWVDIVKTARFKELPPYDPDWYYTRAASIA 64
Query: 63 RKIYLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIELDSKGQS 122
RKIYLR G+GVG F++IYGG +RNGSRPPHF KSSG+++R+IL QLQ II++D KG
Sbjct: 65 RKIYLRQGIGVGGFQKIYGGRQRNGSRPPHFCKSSGAISRNILQQLQKMGIIDVDPKGGR 124
Query: 123 LVLVERLHKLD 133
L+ + LD
Sbjct: 125 LITSQGRRDLD 135
>pdb|3JYV|T Chain T, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 141
Score = 110 bits (275), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 77/116 (66%), Gaps = 1/116 (0%)
Query: 6 NVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPD-WYYIRAASMARK 64
+V+DV+ +F+ AYA+ L+R GK+E+P + DIVKT + E+ P D + W+Y RAAS+AR
Sbjct: 2 SVRDVAAQDFINAYASFLQRQGKLEVPGYVDIVKTSSGNEMPPQDAEGWFYKRAASVARH 61
Query: 65 IYLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIELDSKG 120
IY+R +GVG ++YGG K G RP +SGS+ R +L L+ I+E+ KG
Sbjct: 62 IYMRKQVGVGKLNKLYGGAKSRGVRPYKHIDASGSINRKVLQALEKIGIVEISPKG 117
>pdb|3IZB|S Chain S, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|M Chain M, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|M Chain M, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|T Chain T, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|T Chain T, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 144
Score = 110 bits (275), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 77/116 (66%), Gaps = 1/116 (0%)
Query: 6 NVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPD-WYYIRAASMARK 64
+V+DV+ +F+ AYA+ L+R GK+E+P + DIVKT + E+ P D + W+Y RAAS+AR
Sbjct: 5 SVRDVAAQDFINAYASFLQRQGKLEVPGYVDIVKTSSGNEMPPQDAEGWFYKRAASVARH 64
Query: 65 IYLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIELDSKG 120
IY+R +GVG ++YGG K G RP +SGS+ R +L L+ I+E+ KG
Sbjct: 65 IYMRKQVGVGKLNKLYGGAKSRGVRPYKHIDASGSINRKVLQALEKIGIVEISPKG 120
>pdb|2XZM|T Chain T, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|T Chain T, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 155
Score = 94.0 bits (232), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 42/112 (37%), Positives = 64/112 (57%)
Query: 6 NVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPDWYYIRAASMARKI 65
VKDV+ +F++ YA+HLK++ K+ +P + T +ELAP D DW YIR A++ARK+
Sbjct: 9 TVKDVAAADFIREYASHLKKANKLSIPEFTQWTTTSVARELAPQDSDWVYIRTAALARKV 68
Query: 66 YLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIELD 117
YL+ G+ + + I+G K G+ G + R L L+D II D
Sbjct: 69 YLKPHTGISTLKHIFGSNKDRGNLRNKHQACHGKILRWALKSLEDLKIIRKD 120
>pdb|3ZEY|O Chain O, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 167
Score = 84.7 bits (208), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 40/110 (36%), Positives = 62/110 (56%)
Query: 6 NVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPDWYYIRAASMARKI 65
++DV P +VK + H K+ GK+ +P +IVKT +E AP +PDWYYIR A++ R +
Sbjct: 22 TLRDVHPWRWVKICSQHFKQEGKMMVPNCAEIVKTSHGRERAPQNPDWYYIRCAAVLRAV 81
Query: 66 YLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIE 115
YLR G+G G + + K GSRP +++S + L ++E
Sbjct: 82 YLRPGVGYGGLSKRFSSKKNRGSRPEITTRASKGLLHWCCKSLTKLELLE 131
>pdb|2V7F|A Chain A, Structure Of P. Abyssi Rps19 Protein
Length = 150
Score = 83.2 bits (204), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 44/110 (40%), Positives = 57/110 (51%)
Query: 6 NVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPDWYYIRAASMARKI 65
V DV V+ A LK +I+ P W VKTG KE P DW+Y R AS+ R++
Sbjct: 3 TVYDVPGDLLVERVAQRLKEIPEIKPPEWAPFVKTGRHKERLPEQEDWWYYRVASILRRV 62
Query: 66 YLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIE 115
YL G +G+ R YGG K G P F K+ GS+ R L QL+ +E
Sbjct: 63 YLDGPVGIERLRTYYGGRKNRGHAPERFYKAGGSIIRKALQQLEAAGFVE 112
>pdb|3J20|U Chain U, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 150
Score = 83.2 bits (204), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 44/110 (40%), Positives = 57/110 (51%)
Query: 6 NVKDVSPHEFVKAYAAHLKRSGKIELPTWNDIVKTGTLKELAPYDPDWYYIRAASMARKI 65
V DV V+ A LK +I+ P W VKTG KE P DW+Y R AS+ R++
Sbjct: 3 TVYDVPGDLLVERVAQRLKEIPEIKPPEWAPFVKTGRHKERLPEQEDWWYYRVASILRRV 62
Query: 66 YLRGGLGVGSFRRIYGGGKRNGSRPPHFSKSSGSVARHILHQLQDTNIIE 115
YL G +G+ R YGG K G P F K+ GS+ R L QL+ +E
Sbjct: 63 YLDGPVGIERLRTYYGGRKNRGHAPEKFYKAGGSIIRKALQQLEAAGFVE 112
>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
pdb|3KB1|B Chain B, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
Length = 262
Score = 29.3 bits (64), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 4/44 (9%)
Query: 15 FVKAYAAHLKRSGKIE----LPTWNDIVKTGTLKELAPYDPDWY 54
F + A+ L R KIE +P +D++K L + Y+PDW+
Sbjct: 206 FGEGKASELARKYKIEFITEIPIDSDLLKLSDLGRVEEYEPDWF 249
>pdb|3FN9|A Chain A, Crystal Structure Of Putative Beta-galactosidase From
Bacteroides Fragilis
pdb|3FN9|B Chain B, Crystal Structure Of Putative Beta-galactosidase From
Bacteroides Fragilis
pdb|3FN9|C Chain C, Crystal Structure Of Putative Beta-galactosidase From
Bacteroides Fragilis
pdb|3FN9|D Chain D, Crystal Structure Of Putative Beta-galactosidase From
Bacteroides Fragilis
Length = 692
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 49/101 (48%), Gaps = 5/101 (4%)
Query: 29 IELP-TWNDI---VKTGTLKELAPYDPDWYYIRAASMARKIYLRGGLGVGSFRRIYGGGK 84
+E+P TWN + V++G+ E A Y + ++++LR GVG+ +Y GK
Sbjct: 39 VEIPHTWNAMDMQVQSGSFYEGAGYYRKTQFFPHDLEGKRVFLRFE-GVGACAEVYVNGK 97
Query: 85 RNGSRPPHFSKSSGSVARHILHQLQDTNIIELDSKGQSLVL 125
G+ +S + + + ++ I++ D+K + V+
Sbjct: 98 LAGTHKGGYSAFACEIGTALKLGAENEIIVKADNKARPDVI 138
>pdb|2PKP|A Chain A, Crystal Structure Of 3-Isopropylmalate Dehydratase (Leud)
From Methhanocaldococcus Jannaschii Dsm2661 (Mj1271)
Length = 170
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 8/35 (22%), Positives = 21/35 (60%)
Query: 107 QLQDTNIIELDSKGQSLVLVERLHKLDCENSNGMD 141
+++D +I+E+D + +V+ + + CE G++
Sbjct: 109 EIKDGDIVEIDLDKEEIVITNKNKTIKCETPKGLE 143
>pdb|2XZI|A Chain A, The Aspergillus Fumigatus Sialidase Is A Kdnase:
Structural And Mechanistic Insights
pdb|2XZI|B Chain B, The Aspergillus Fumigatus Sialidase Is A Kdnase:
Structural And Mechanistic Insights
pdb|2XZJ|A Chain A, The Aspergillus Fumigatus Sialidase Is A Kdnase:
Structural And Mechanistic Insights
pdb|2XZJ|B Chain B, The Aspergillus Fumigatus Sialidase Is A Kdnase:
Structural And Mechanistic Insights
pdb|2XZK|A Chain A, The Aspergillus Fumigatus Sialidase Is A Kdnase:
Structural And Mechanistic Insights
pdb|2XZK|B Chain B, The Aspergillus Fumigatus Sialidase Is A Kdnase:
Structural And Mechanistic Insights
Length = 386
Score = 26.2 bits (56), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 44 KELAPYDPDWYYIRAASMARKIYLRGGLGVGSFR 77
K APY ++ R+A+MA L G+G SFR
Sbjct: 6 KSAAPYHDEFPLFRSANMASPDKLSTGIGFHSFR 39
>pdb|2B0T|A Chain A, Structure Of Monomeric Nadp Isocitrate Dehydrogenase
pdb|3MBC|A Chain A, Crystal Structure Of Monomeric Isocitrate Dehydrogenase
From Corynebacterium Glutamicum In Complex With Nadp
pdb|3MBC|B Chain B, Crystal Structure Of Monomeric Isocitrate Dehydrogenase
From Corynebacterium Glutamicum In Complex With Nadp
Length = 738
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 5/45 (11%)
Query: 96 SSGSVARHILHQLQDTNIIELDSKGQSLVLVERL-HKLDCENSNG 139
+ GS +H+ Q+Q+ N + DS G+ L L E H+L N+NG
Sbjct: 578 AGGSAPKHV-QQVQEENHLRWDSLGEFLALAESFRHEL---NNNG 618
>pdb|3C4X|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.9a
pdb|3C4X|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.9a
pdb|3C4Y|A Chain A, Crystal Structure Of Apo Form Of G Protein Coupled
Receptor Kinase 1 At 7.51a
pdb|3C4Y|B Chain B, Crystal Structure Of Apo Form Of G Protein Coupled
Receptor Kinase 1 At 7.51a
pdb|3C4Z|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 1.84a
pdb|3C50|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 2.6a
pdb|3C50|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 2.6a
pdb|3C51|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 3.55a
pdb|3C51|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Adp And Magnesium Chloride At 3.55a
Length = 543
Score = 25.8 bits (55), Expect = 9.4, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 8/57 (14%)
Query: 4 AKNVKDVSPHEFVKAYAAHLK--------RSGKIELPTWNDIVKTGTLKELAPYDPD 52
AKN++DV VK A SG +P ++++TG +L + PD
Sbjct: 478 AKNIQDVGAFSTVKGVAFEKADTEFFQEFASGTCPIPWQEEMIETGVFGDLNVWRPD 534
>pdb|3C4W|A Chain A, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.7a
pdb|3C4W|B Chain B, Crystal Structure Of G Protein Coupled Receptor Kinase 1
Bound To Atp And Magnesium Chloride At 2.7a
Length = 543
Score = 25.8 bits (55), Expect = 9.4, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 8/57 (14%)
Query: 4 AKNVKDVSPHEFVKAYAAHLK--------RSGKIELPTWNDIVKTGTLKELAPYDPD 52
AKN++DV VK A SG +P ++++TG +L + PD
Sbjct: 478 AKNIQDVGAFSTVKGVAFEKADTEFFQEFASGTCPIPWQEEMIETGVFGDLNVWRPD 534
>pdb|3T8O|A Chain A, Rhodopsin Kinase (grk1) L166k Mutant At 2.5a Resolution
Length = 543
Score = 25.8 bits (55), Expect = 9.5, Method: Composition-based stats.
Identities = 16/57 (28%), Positives = 25/57 (43%), Gaps = 8/57 (14%)
Query: 4 AKNVKDVSPHEFVKAYAAHLK--------RSGKIELPTWNDIVKTGTLKELAPYDPD 52
AKN++DV VK A SG +P ++++TG +L + PD
Sbjct: 478 AKNIQDVGAFSTVKGVAFEKADTEFFQEFASGTCPIPWQEEMIETGVFGDLNVWRPD 534
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.135 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,726,759
Number of Sequences: 62578
Number of extensions: 196680
Number of successful extensions: 405
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 392
Number of HSP's gapped (non-prelim): 16
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)