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= psy14956
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DCK|A Chain A, Crystal Structure Of The C-Terminus Of Voltage-Gated
Sodium Channel In Complex With Fgf13 And Cam
Length = 168
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 7/74 (9%)
Query: 3 CVDILDALTKDFFARKGN----PIEETGDLVAEVNTRPDEAGYDPVSSTLWRQREEYCAR 58
C+DIL A TK G I+ +A P + Y+P+++TL R+ EE A
Sbjct: 78 CMDILFAFTKRVLGESGEMDALKIQMEEKFMA---ANPSKISYEPITTTLRRKHEEVSAM 134
Query: 59 LIQHAWRKHKQCRA 72
+IQ A+R+H R+
Sbjct: 135 VIQRAFRRHLLQRS 148
>pdb|2GEZ|B Chain B, Crystal Structure Of Potassium-Independent Plant
Asparaginase
pdb|2GEZ|D Chain D, Crystal Structure Of Potassium-Independent Plant
Asparaginase
pdb|2GEZ|F Chain F, Crystal Structure Of Potassium-Independent Plant
Asparaginase
pdb|2GEZ|H Chain H, Crystal Structure Of Potassium-Independent Plant
Asparaginase
Length = 133
Score = 31.2 bits (69), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 86 RDTAVLVESDGFSIKNGHRVVIHSRSPSQT 115
RD A L+E G S+K VIH R+P T
Sbjct: 64 RDVAALMEFKGLSLKEAADFVIHERTPKGT 93
>pdb|3RI0|A Chain A, Epitope Backbone Grafting By Computational Design For
Improved Presentation Of Linear Epitopes On Scaffold
Proteins
pdb|3RI0|B Chain B, Epitope Backbone Grafting By Computational Design For
Improved Presentation Of Linear Epitopes On Scaffold
Proteins
Length = 165
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 12/71 (16%)
Query: 82 SPDGRDTAVLVESDGFSIKNGHRVVIHSRSPSQTSR------SAECLFSFKDFSMG--KW 133
SP R +E+ GF GH V+ + ++T++ AE K + G K
Sbjct: 3 SPSARRVQGALETRGF----GHLKVVELPASTRTAKEAAQAVGAEVGQIVKSLAYGGSKG 58
Query: 134 AYLCLLCGKNR 144
AYL L+ GKNR
Sbjct: 59 AYLFLVSGKNR 69
>pdb|1Z8F|A Chain A, Guanylate Kinase Double Mutant A58c, T157c From
Mycobacterium Tuberculosis (Rv1389)
Length = 228
Score = 26.6 bits (57), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 9/42 (21%)
Query: 50 RQREEYCARLIQHAWRKHKQCRAGGTEPGSPGSPDGRDTAVL 91
R+ E CA L+ GT PGSPG P G+ A L
Sbjct: 189 RRLESACAELVSLLV---------GTAPGSPGVPRGKLAAAL 221
>pdb|2BV3|A Chain A, Crystal Structure Of A Mutant Elongation Factor G Trapped
With A Gtp Analogue
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|1ZN0|B Chain B, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of
The 50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf
Length = 655
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 80 GVEPQSETVWRQAEKY 95
>pdb|2BM1|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant G16v
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|2BM0|A Chain A, Ribosomal Elongation Factor G (Ef-G) Fusidic Acid
Resistant Mutant T84a
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|1KTV|A Chain A, Crystal Structure Of Elongation Factor G Dimer Without
Nucleotide
pdb|1KTV|B Chain B, Crystal Structure Of Elongation Factor G Dimer Without
Nucleotide
pdb|1DAR|A Chain A, Elongation Factor G In Complex With Gdp
pdb|1ELO|A Chain A, Elongation Factor G Without Nucleotide
pdb|2OM7|L Chain L, Structural Basis For Interaction Of The Ribosome With The
Switch Regions Of Gtp-Bound Elongation Factors
pdb|2WRI|Y Chain Y, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|Y Chain Y, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2XSY|Y Chain Y, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|Y Chain Y, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|3J18|Y Chain Y, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|1FNM|A Chain A, Structure Of Thermus Thermophilus Ef-G H573a
pdb|1PN6|A Chain A, Domain-Wise Fitting Of The Crystal Structure Of
T.Thermophilus Ef-G Into The Low Resolution Map Of The
Release Complex.Puromycin.Efg.Gdpnp Of E.Coli 70s
Ribosome
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|3IZP|E Chain E, Conformation Of Ef-G During Translocation
Length = 688
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|2J7K|A Chain A, Crystal Structure Of The T84a Mutant Ef-G:gdpcp Complex
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|1EFG|A Chain A, The Crystal Structure Of Elongation Factor G Complexed
With Gdp, At 2.7 Angstroms Resolution
pdb|2EFG|A Chain A, Translational Elongation Factor G Complexed With Gdp
pdb|1JQM|B Chain B, Fitting Of L11 Protein And Elongation Factor G (Ef-G) In
The Cryo-Em Map Of E. Coli 70s Ribosome Bound With Ef-G,
Gdp And Fusidic Acid
Length = 691
Score = 26.6 bits (57), Expect = 5.3, Method: Composition-based stats.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 40 GYDPVSSTLWRQREEY 55
G +P S T+WRQ E+Y
Sbjct: 113 GVEPQSETVWRQAEKY 128
>pdb|1S4Q|A Chain A, Crystal Structure Of Guanylate Kinase From Mycobacterium
Tuberculosis (Rv1389)
Length = 228
Score = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 19/42 (45%), Gaps = 9/42 (21%)
Query: 50 RQREEYCARLIQHAWRKHKQCRAGGTEPGSPGSPDGRDTAVL 91
R+ E CA L+ GT PGSPG P G+ A L
Sbjct: 189 RRLESACAELVSLLV---------GTAPGSPGVPRGKLAAAL 221
>pdb|2IXA|A Chain A, A-Zyme, N-Acetylgalactosaminidase
pdb|2IXB|A Chain A, Crystal Structure Of N-Acetylgalactosaminidase In Complex
With Galnac
Length = 444
Score = 26.6 bits (57), Expect = 6.0, Method: Composition-based stats.
Identities = 20/90 (22%), Positives = 32/90 (35%), Gaps = 2/90 (2%)
Query: 46 STLWRQREEYCARLIQHAWRKHKQCRAGGTEPGSPGSPDGRDTAVLVESDGFSIKNGHRV 105
S W E++ W+KH+Q G G D + ++ F +
Sbjct: 342 SHRWDSSEKWIKEYDHPMWKKHEQKAVGAGHGGMDYFLDNTFVECIKRNEAFPLDVYDLA 401
Query: 106 VIHSRSPSQTSRSAE--CLFSFKDFSMGKW 133
+S +P AE + DF+ GKW
Sbjct: 402 TWYSITPLSEKSIAENGAVQEIPDFTNGKW 431
>pdb|1YW1|A Chain A, Structure Of Ytnj From Bacillus Subtilis In Complex With
Fmn
Length = 442
Score = 26.2 bits (56), Expect = 8.0, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 20 NPIEETGDLVAEVNTRPDEAGYDPVSSTLWRQREEYCARLIQHAWRKHKQ 69
N +EET A+V +R + G DP S ++ A + A +K+++
Sbjct: 239 NSLEETKAFYADVKSRAADEGRDPSSVRIFPGISPIVADTEEEAEKKYRE 288
>pdb|4DVL|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 2'-3'-Cyclo-Ump
pdb|4DVL|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 2'-3'-Cyclo-Ump
pdb|4DVN|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 2'-Ump
pdb|4DVN|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 2'-Ump
pdb|4DW3|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 5'-Cmp
pdb|4DW3|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 5'-Cmp
pdb|4DW4|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 5'-Ump
pdb|4DW4|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With 5'-Ump
pdb|4DW5|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With A Non-Cleavable Cpu
Dinucleotide
pdb|4DW5|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With A Non-Cleavable Cpu
Dinucleotide
pdb|4DWC|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With Zn Ions
pdb|4DWC|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 In Complex With Zn Ions
Length = 167
Score = 26.2 bits (56), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 56 CARLIQHAWRKHKQCRAGGTEP 77
C RL +H W KH C EP
Sbjct: 70 CCRLQRHEWNKHGWCNWYNIEP 91
>pdb|4DW7|A Chain A, Crystal Structure Of An Active-Site Mutant Of The
Glycoprotein Erns From The Pestivirus Bvdv-1 In Complex
With A Cpu Dinucleotide
pdb|4DW7|B Chain B, Crystal Structure Of An Active-Site Mutant Of The
Glycoprotein Erns From The Pestivirus Bvdv-1 In Complex
With A Cpu Dinucleotide
pdb|4DWA|A Chain A, Crystal Structure Of An Active-Site Mutant Of The
Glycoprotein Erns From The Pestivirus Bvdv-1 In Complex
With A Cpupc Trinucleotide
pdb|4DWA|B Chain B, Crystal Structure Of An Active-Site Mutant Of The
Glycoprotein Erns From The Pestivirus Bvdv-1 In Complex
With A Cpupc Trinucleotide
Length = 167
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 56 CARLIQHAWRKHKQCRAGGTEP 77
C RL +H W KH C EP
Sbjct: 70 CCRLQRHEWNKHGWCNWYNIEP 91
>pdb|4DVK|A Chain A, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 Strain Ncp-7
pdb|4DVK|B Chain B, Crystal Structure Of The Glycoprotein Erns From The
Pestivirus Bvdv-1 Strain Ncp-7
Length = 165
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 11/22 (50%)
Query: 56 CARLIQHAWRKHKQCRAGGTEP 77
C RL +H W KH C EP
Sbjct: 68 CCRLQRHEWNKHGWCNWYNIEP 89
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
0.319 0.134 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,017,705
Number of Sequences: 62578
Number of extensions: 202434
Number of successful extensions: 454
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 434
Number of HSP's gapped (non-prelim): 22
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)