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= 029999
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3N08|A Chain A, Crystal Structure Of A Putative
Phosphatidylethanolamine-Binding Protein (Pebp) Homolog
Ct736 From Chlamydia Trachomatis DUW-3CX
pdb|3N08|B Chain B, Crystal Structure Of A Putative
Phosphatidylethanolamine-Binding Protein (Pebp) Homolog
Ct736 From Chlamydia Trachomatis DUW-3CX
Length = 153
Score = 89.0 bits (219), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 55/164 (33%), Positives = 83/164 (50%), Gaps = 14/164 (8%)
Query: 21 SEEFRLVSPEINHQGRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDP 80
S +L S ++ +P+KY+ +G G ISP L + +VP KSL L+VED D P
Sbjct: 1 SNAMQLTSQAFSYGRPIPKKYSCQGVG----ISPPLSFSDVPREAKSLVLIVEDPDVPPS 56
Query: 81 SGPIVPWTHWVVVNIPPTLKGLPEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNH 140
W HW+V N+ P + L EG + ++ N ++ G+ P P+
Sbjct: 57 VREDGLWIHWIVYNLSPVVSNLAEG---------AQIFAVQGLNTAGEI-GYCPPCPPDA 106
Query: 141 GHRFQFKLYALDDEMHLGNKVTKERLLEAIEGHVLGEAVLTAIF 184
HR+ F YALD + VTKE+LLEA++GH++ A L +
Sbjct: 107 KHRYYFYAYALDVVLSDEEGVTKEQLLEAMDGHIIATAELMGTY 150
>pdb|1VI3|A Chain A, Crystal Structure Of An Hypothetical Protein
Length = 170
Score = 80.9 bits (198), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 80/165 (48%), Gaps = 10/165 (6%)
Query: 23 EFRLVSPEINHQGRLPRKYTNEGQGAK-KNISPRLEWYNVPEGTKSLALVVEDIDAPDPS 81
+L+S ++ +LP ++ G G NISP L W +VP GTKS + D DAP S
Sbjct: 2 SLKLISNDLRDGDKLPHRHVFNGXGYDGDNISPHLAWDDVPAGTKSFVVTCYDPDAPTGS 61
Query: 82 GPIVPWTHWVVVNIPPTLKGLPEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLP-NH 140
G W HWVVVN+P + LP+GF + G+ + D+ G+ G P
Sbjct: 62 G----WWHWVVVNLPADTRVLPQGFG---SGLVAXPDGVLQTRTDFGKTGYDGAAPPKGE 114
Query: 141 GHRFQFKLYALDDE-MHLGNKVTKERLLEAIEGHVLGEAVLTAIF 184
HR+ F ++ALD E + + + + + H L A +TA F
Sbjct: 115 THRYIFTVHALDIERIDVDEGASGAXVGFNVHFHSLASASITAXF 159
>pdb|1FJJ|A Chain A, Crystal Structure Of E.Coli Ybhb Protein, A New Member Of
The Mammalian Pebp Family
Length = 159
Score = 80.9 bits (198), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 54/163 (33%), Positives = 80/163 (49%), Gaps = 10/163 (6%)
Query: 25 RLVSPEINHQGRLPRKYTNEGQGAK-KNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGP 83
+L+S ++ +LP ++ G G NISP L W +VP GTKS + D DAP SG
Sbjct: 3 KLISNDLRDGDKLPHRHVFNGXGYDGDNISPHLAWDDVPAGTKSFVVTCYDPDAPTGSG- 61
Query: 84 IVPWTHWVVVNIPPTLKGLPEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLP-NHGH 142
W HWVVVN+P + LP+GF + G+ + D+ G+ G P H
Sbjct: 62 ---WWHWVVVNLPADTRVLPQGFG---SGLVAXPDGVLQTRTDFGKTGYDGAAPPKGETH 115
Query: 143 RFQFKLYALDDE-MHLGNKVTKERLLEAIEGHVLGEAVLTAIF 184
R+ F ++ALD E + + + + + H L A +TA F
Sbjct: 116 RYIFTVHALDIERIDVDEGASGAXVGFNVHFHSLASASITAXF 158
>pdb|1FUX|A Chain A, Crystal Structure Of E.Coli Ybcl, A New Member Of The
Mammalian Pebp Family
pdb|1FUX|B Chain B, Crystal Structure Of E.Coli Ybcl, A New Member Of The
Mammalian Pebp Family
Length = 166
Score = 78.2 bits (191), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 55/136 (40%), Positives = 73/136 (53%), Gaps = 11/136 (8%)
Query: 23 EFRLVSPEINHQGRLPRKYTNEGQGAKK-NISPRLEWYNVPEGTKSLALVVEDIDAPDPS 81
EF++ S EI +L + G G + N SP L W VPEGTKS A+ V D DAP S
Sbjct: 2 EFQVTSNEIKTGEQLTTSHVFSGFGCEGGNTSPSLTWSGVPEGTKSFAVTVYDPDAPTGS 61
Query: 82 GPIVPWTHWVVVNIPPTLKGLPEGFSGKEEEIGGEY-AGIKEGNNDWKVPGWRGPKLP-- 138
G W HW VVNIP T+ LP +G+ + G + G +G ND+ G+ G P
Sbjct: 62 G----WWHWTVVNIPATVTYLPVD-AGRRD--GTKLPTGAVQGRNDFGYAGFGGACPPKG 114
Query: 139 NHGHRFQFKLYALDDE 154
+ H +QFK++AL E
Sbjct: 115 DKPHHYQFKVWALKTE 130
>pdb|2EVV|A Chain A, Crystal Structure Of The Pebp-like Protein Of Unknown
Function Hp0218 From Helicobacter Pylori
pdb|2EVV|B Chain B, Crystal Structure Of The Pebp-like Protein Of Unknown
Function Hp0218 From Helicobacter Pylori
pdb|2EVV|C Chain C, Crystal Structure Of The Pebp-like Protein Of Unknown
Function Hp0218 From Helicobacter Pylori
pdb|2EVV|D Chain D, Crystal Structure Of The Pebp-like Protein Of Unknown
Function Hp0218 From Helicobacter Pylori
Length = 207
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/130 (28%), Positives = 55/130 (42%), Gaps = 19/130 (14%)
Query: 35 GRLPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGPIVPWTHWVVVN 94
G P+ + N SP++ W V EG +S AL + D DA G P+ HWVV N
Sbjct: 44 GNAPKAFLNSN--GLPTYSPKISWQKV-EGAQSYALELIDHDAQKVCG--XPFVHWVVGN 98
Query: 95 IPPTLKGLPEGFSGKEEEIGGEYAGIKEG------------NNDWKVPGWRGPKLPNHGH 142
I + L E S ++ I + +G ++ + GP PN H
Sbjct: 99 IAHNV--LEENASXXDKRIVQGVNSLTQGFIRSPLNESEKQRSNLNNSVYIGPXPPNGDH 156
Query: 143 RFQFKLYALD 152
+ ++YALD
Sbjct: 157 HYLIQVYALD 166
>pdb|3AXY|A Chain A, Structure Of Florigen Activation Complex Consisting Of
Rice Florigen Hd3a, 14-3-3 Protein Gf14 And Rice Fd
Homolog Osfd1
pdb|3AXY|B Chain B, Structure Of Florigen Activation Complex Consisting Of
Rice Florigen Hd3a, 14-3-3 Protein Gf14 And Rice Fd
Homolog Osfd1
pdb|3AXY|G Chain G, Structure Of Florigen Activation Complex Consisting Of
Rice Florigen Hd3a, 14-3-3 Protein Gf14 And Rice Fd
Homolog Osfd1
pdb|3AXY|H Chain H, Structure Of Florigen Activation Complex Consisting Of
Rice Florigen Hd3a, 14-3-3 Protein Gf14 And Rice Fd
Homolog Osfd1
Length = 170
Score = 30.4 bits (67), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 69 ALVVEDIDAPDPSGP-IVPWTHWVVVNIPPT 98
LV+ D DAP PS P + + HW+V +IP T
Sbjct: 68 TLVMVDPDAPSPSDPNLREYLHWLVTDIPGT 98
>pdb|1WKO|A Chain A, Terminal Flower 1 (Tfl1) From Arabidopsis Thaliana
pdb|1WKO|B Chain B, Terminal Flower 1 (Tfl1) From Arabidopsis Thaliana
Length = 180
Score = 30.0 bits (66), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 5/44 (11%)
Query: 68 LALVVEDIDAPDPSGPIVP-WTHWVVVNIPPTLKGLPEGFSGKE 110
LV+ D D P PS P + HW+V NIP G + GKE
Sbjct: 71 FTLVMIDPDVPGPSDPFLKEHLHWIVTNIP----GTTDATFGKE 110
>pdb|1LVM|A Chain A, Catalytically Active Tobacco Etch Virus Protease Complexed
With Product
pdb|1LVM|B Chain B, Catalytically Active Tobacco Etch Virus Protease Complexed
With Product
Length = 229
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 65 TKSLALVVEDIDAPDPSGPIVPWTHWV 91
TKS++ +V D PS + W HW+
Sbjct: 126 TKSMSSMVSDTSCTFPSSDGIFWKHWI 152
>pdb|1Q31|A Chain A, Crystal Structure Of The Tobacco Etch Virus Protease C151a
Mutant
pdb|1Q31|B Chain B, Crystal Structure Of The Tobacco Etch Virus Protease C151a
Mutant
Length = 242
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 65 TKSLALVVEDIDAPDPSGPIVPWTHWV 91
TKS++ +V D PS + W HW+
Sbjct: 118 TKSMSSMVSDTSCTFPSSDGIFWKHWI 144
>pdb|1ZOY|A Chain A, Crystal Structure Of Mitochondrial Respiratory Complex Ii
From Porcine Heart At 2.4 Angstroms
pdb|1ZP0|A Chain A, Crystal Structure Of Mitochondrial Respiratory Complex Ii
Bound With 3-Nitropropionate And
2-Thenoyltrifluoroacetone
pdb|3ABV|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-Biphenyl-3-Yl-2-Trifluoromethyl-Benzamide
pdb|3AE1|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With N-Phenyl-2-(Trifluoromethyl)-Benzamide
pdb|3AE2|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Hydroxy-N-Phenyl-Benzamide
pdb|3AE3|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Nitro-N-Phenyl-Benzamide
pdb|3AE4|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-Methyl-Benzamide
pdb|3AE5|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Methyl-N-(3-Isopropoxy-Phenyl)-Benzamide
pdb|3AE6|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With N-(3-Isopropoxy-Phenyl)-Phthalamicacid
pdb|3AE7|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-(3-Isopropoxy-Phenyl)-Benzamide
pdb|3AE8|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Isopropoxy-Phenyl)-2-Trifluoromethylbenzamide
pdb|3AE9|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Pentafluorophenyloxy-Phenyl)-2-Trifluoromethyl-
Benzamide
pdb|3AEA|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Dimethylaminomethyl-Phenyl)-2-Trifluoromethyl-
Benzamide
pdb|3AEB|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With
N-(3-Phenoxy-Phenyl)-2-Trifluoromethyl-Benzamide
pdb|3AEC|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-(1-Methylethyl)-Benzamid
pdb|3AED|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With 2-Iodo-N-Phenyl-Benzamide
pdb|3AEE|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With Atpenin A5
pdb|3AEF|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii With An Empty Quinone-Binding Pocket
pdb|3AEG|A Chain A, Crystal Structure Of Porcine Heart Mitochondrial Complex
Ii Bound With N-Biphenyl-3-Yl-2-Iodo-Benzamide
pdb|3SFD|A Chain A, Crystal Structure Of Porcine Mitochondrial Respiratory
Complex Ii Bound With Oxaloacetate And Pentachlorophenol
pdb|3SFE|A Chain A, Crystal Structure Of Porcine Mitochondrial Respiratory
Complex Ii Bound With Oxaloacetate And Thiabendazole
Length = 622
Score = 26.9 bits (58), Expect = 5.8, Method: Composition-based stats.
Identities = 14/56 (25%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 64 GTKSLALVVEDIDAPDPSGPIVPWTHWVVVNIPPTLKG-LPEGFSGKEEEIGGEYA 118
G A++ +D P++P H+ + IP KG + +G+++ + G YA
Sbjct: 340 GISETAMIFAGVDVTKEPIPVLPTVHYNMGGIPTNYKGQVLRHVNGQDQVVPGLYA 395
>pdb|3ZVP|C Chain C, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|4ABS|C Chain C, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
Length = 229
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 137 LPNHGHRFQF--------KLYALDDEMHLGNKVTKERLLEAIEGH 173
+P HG R++ K+Y +D+ HL ++ + E +E H
Sbjct: 1 MPKHGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVH 45
>pdb|1EG0|N Chain N, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|2HGJ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgi.
pdb|2HGQ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgq Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgp.
pdb|2HGU|C Chain C, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|1VSA|A Chain A, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|1VSP|A Chain A, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3U4M|A Chain A, Crystal Structure Of Ribosomal Protein Tthl1 In Complex
With 80nt 23s Rna From Thermus Thermophilus
Length = 229
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 137 LPNHGHRFQF--------KLYALDDEMHLGNKVTKERLLEAIEGH 173
+P HG R++ K+Y +D+ HL ++ + E +E H
Sbjct: 1 MPKHGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVH 45
>pdb|4F9T|A Chain A, Ribosomal Protein L1 From Thermus Thermophilus With
Substitution Thr217ala
Length = 229
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 137 LPNHGHRFQF--------KLYALDDEMHLGNKVTKERLLEAIEGH 173
+P HG R++ K+Y +D+ HL ++ + E +E H
Sbjct: 1 MPKHGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVH 45
>pdb|3U42|A Chain A, Mutant Ribosomal Protein L1 From Thermus Thermophilus With
Threonine 217 Replaced By Valine
pdb|3U56|A Chain A, Crystal Structure Of Mutant Ribosomal Protein T217v Tthl1
In Complex With 80nt 23s Rna From Thermus Thermophilus
Length = 229
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 137 LPNHGHRFQF--------KLYALDDEMHLGNKVTKERLLEAIEGH 173
+P HG R++ K+Y +D+ HL ++ + E +E H
Sbjct: 1 MPKHGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVH 45
>pdb|3TG8|A Chain A, Mutant Ribosomal Protein L1 Lacking Ala158 From Thermus
Thermophilus
Length = 228
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/45 (26%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 137 LPNHGHRFQF--------KLYALDDEMHLGNKVTKERLLEAIEGH 173
+P HG R++ K+Y +D+ HL ++ + E +E H
Sbjct: 1 MPKHGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVH 45
>pdb|2JYZ|A Chain A, Cg7054 Solution Structure
Length = 179
Score = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 45/120 (37%), Gaps = 20/120 (16%)
Query: 37 LPRKYTNEGQGAKKNISPRLEWYNVPEGTKSLALVVEDIDAPDPSGP-IVPWTHWVVVNI 95
L K NE + P + W + + L L++ D DAP P HW VVNI
Sbjct: 25 LEVKQGNELTPTQVKDQPIVSWSGLEGKSNLLTLLMVDPDAPTRQDPKYREILHWSVVNI 84
Query: 96 PPTLKGLPEGFSGKEEEIGGEYAGIKEGNNDWKVPGWRGPKLPNHGHRFQFKLYALDDEM 155
P G E SG +Y G GP HR+ F LY ++++
Sbjct: 85 P----GSNENPSGGHSL--ADYVG-------------SGPPKDTGLHRYIFLLYRQENKI 125
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
0.315 0.137 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,410,682
Number of Sequences: 62578
Number of extensions: 303885
Number of successful extensions: 439
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 423
Number of HSP's gapped (non-prelim): 23
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)