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= 019620
(338 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2LCK|A Chain A, Structure Of The Mitochondrial Uncoupling Protein 2
Determined By Nmr Molecular Fragment Replacement
Length = 303
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 75/330 (22%), Positives = 122/330 (36%), Gaps = 66/330 (20%)
Query: 22 TYPLQTVNARQQTERDVKKEKRK---------LGTVAQMCQVVKHEGWGRLYGGLTPSI- 71
T+PL T R Q + + + R LGT+ M V+ EG LY GL +
Sbjct: 19 TFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTM---VRTEGPRSLYNGLVAGLQ 75
Query: 72 ---VGTAASQGVYYYFYQIFRNNAEVAALEHKKRGIGDGSVGMLSSLVVAALAGCVNVLL 128
+ G+Y Q + +E A GIG S L+ + G + V +
Sbjct: 76 RQMSFASVRIGLYDSVKQFYTKGSEHA-------GIG-------SRLLAGSTTGALAVAV 121
Query: 129 TNPIWVVVTRMQTHTKTLKKSKPCRSELTSSEKSSHATVEPPPFATSHAIQEVYDEAGLW 188
P VV R Q + + +TVE A + + E G+
Sbjct: 122 AQPTDVVKVRFQAQARA------------GGGRRYQSTVE--------AYKTIAREEGIR 161
Query: 189 GFWRGVFPTLIMVSNPSIQFMLYETMLKKIKERRALRKKDNSGVTALEIFLLGAL-AKLG 247
G W+G P + + + ++ ++K + L D L A A
Sbjct: 162 GLWKGTSPNVARNAIVNCAELVTYDLIKDTLLKANLMTDD------LPCHFTSAFGAGFC 215
Query: 248 ATIVTYPLLVVKARLQAKQVTTGDKRHHYKGTLDAILKMIRYEGFYGFYQGMGTKIVQSV 307
T++ P+ VVK R + + ++H G L M+R EG FY+G ++
Sbjct: 216 TTVIASPVDVVKTRY----MNSALGQYHSAG--HCALTMLRKEGPRAFYKGFMPSFLRLG 269
Query: 308 LAAAVLFMIKEELVKGARFLLAQNKPKSKP 337
V+F+ E+L R L+A + + P
Sbjct: 270 SWNVVMFVTYEQL---KRALMAAYQSREAP 296
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 4/66 (6%)
Query: 238 FLLGALAKLGATIVTYPLLVVKARLQAKQVTTGDKR----HHYKGTLDAILKMIRYEGFY 293
FL A A ++T+PL K RLQ + + G R Y+G L IL M+R EG
Sbjct: 5 FLGAGTAACIADLITFPLDTAKVRLQIQGESQGLVRTAASAQYRGVLGTILTMVRTEGPR 64
Query: 294 GFYQGM 299
Y G+
Sbjct: 65 SLYNGL 70
>pdb|1OKC|A Chain A, Structure Of Mitochondrial AdpATP CARRIER IN COMPLEX WITH
Carboxyatractyloside
pdb|2C3E|A Chain A, The Bovine Mitochondrial Adp-Atp Carrier
Length = 297
Score = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 46/218 (21%), Positives = 76/218 (34%), Gaps = 29/218 (13%)
Query: 106 DGSVGMLSSLVVAALAGCVNVLLTNPIWVVVTRMQTHTKTLKKSKPCRSELTSSEKSSHA 165
D ++ L + +A ++ PI V +Q S+ S+EK
Sbjct: 2 DQALSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHA---------SKQISAEKQYKG 52
Query: 166 TVEPPPFATSHAIQEVYDEAGLWGFWRGVFPTLIMVSNPSIQFMLYETMLKKIKERRALR 225
++ + + E G FWRG +I ++ K+I R
Sbjct: 53 IID--------CVVRIPKEQGFLSFWRGNLANVIRYFPTQALNFAFKDKYKQIFLGGVDR 104
Query: 226 KKDNSGVTALEIFLLGALAKLGATIVT-----YPLLVVKARLQAKQVTTGDKRHHYKGTL 280
K + G LA GA T YPL + RL A V G + + G
Sbjct: 105 HKQ------FWRYFAGNLASGGAAGATSLCFVYPLDFARTRLAA-DVGKGAAQREFTGLG 157
Query: 281 DAILKMIRYEGFYGFYQGMGTKIVQSVLAAAVLFMIKE 318
+ I K+ + +G G YQG + ++ A F + +
Sbjct: 158 NCITKIFKSDGLRGLYQGFNVSVQGIIIYRAAYFGVYD 195
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 48/95 (50%), Gaps = 7/95 (7%)
Query: 229 NSGVTALEIFLLGALAKLGATIVTYPLLVVKARLQ----AKQVTTGDKRHHYKGTLDAIL 284
+ ++ L+ FL G +A + P+ VK LQ +KQ++ YKG +D ++
Sbjct: 2 DQALSFLKDFLAGGVAAAISKTAVAPIERVKLLLQVQHASKQISA---EKQYKGIIDCVV 58
Query: 285 KMIRYEGFYGFYQGMGTKIVQSVLAAAVLFMIKEE 319
++ + +GF F++G +++ A+ F K++
Sbjct: 59 RIPKEQGFLSFWRGNLANVIRYFPTQALNFAFKDK 93
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 52/288 (18%), Positives = 108/288 (37%), Gaps = 34/288 (11%)
Query: 32 QQTERDVKKEKRKLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYFYQIFRNN 91
Q + + EK+ G + + ++ K +G+ + G +++ +Q + + F ++
Sbjct: 38 QHASKQISAEKQYKGIIDCVVRIPKEQGFLSFWRGNLANVIRYFPTQALNFAFKDKYKQI 97
Query: 92 AEVAALEHKKRGIGDGSVGMLSSLVVAALAGCVNVLLTNPIWVVVTRMQTHTKTLKKSKP 151
HK+ G L+S AG ++ P+ TR+
Sbjct: 98 FLGGVDRHKQ--FWRYFAGNLAS---GGAAGATSLCFVYPLDFARTRLAADVG----KGA 148
Query: 152 CRSELTSSEKSSHATVEPPPFATSHAIQEVYDEAGLWGFWRGVFPTLIMVSNPSIQ-FML 210
+ E T + I +++ GL G ++G N S+Q ++
Sbjct: 149 AQREFT---------------GLGNCITKIFKSDGLRGLYQGF--------NVSVQGIII 185
Query: 211 YETMLKKIKERRALRKKDNSGVTALEIFLLGALAKLGATIVTYPLLVVKARLQAKQVTTG 270
Y + + D V + +++ A +V+YP V+ R+ + G
Sbjct: 186 YRAAYFGVYDTAKGMLPDPKNVHIIVSWMIAQTVTAVAGLVSYPFDTVRRRMMMQSGRKG 245
Query: 271 DKRHHYKGTLDAILKMIRYEGFYGFYQGMGTKIVQSVLAAAVLFMIKE 318
Y GT+D K+ + EG F++G + +++ + A VL + E
Sbjct: 246 -ADIMYTGTVDCWRKIAKDEGPKAFFKGAWSNVLRGMGGAFVLVLYDE 292
>pdb|4AF0|A Chain A, Crystal Structure Of Cryptococcal Inosine Monophosphate
Dehydrogenase
Length = 556
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 45 LGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYF----YQIFRNNAEVAALEHK 100
+G + + + + + GGL + GT S G Y+Y +++R + A+EH
Sbjct: 393 IGNIGHIAKALALGASAVMMGGL---LAGTTESPGEYFYHEGKRVKVYRGMGSIEAMEHT 449
Query: 101 KRGIGDGSVGML 112
+RG G +L
Sbjct: 450 QRGSASGKRSIL 461
>pdb|4AF0|B Chain B, Crystal Structure Of Cryptococcal Inosine Monophosphate
Dehydrogenase
Length = 556
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 7/72 (9%)
Query: 45 LGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYF----YQIFRNNAEVAALEHK 100
+G + + + + + GGL + GT S G Y+Y +++R + A+EH
Sbjct: 393 IGNIGHIAKALALGASAVMMGGL---LAGTTESPGEYFYHEGKRVKVYRGMGSIEAMEHT 449
Query: 101 KRGIGDGSVGML 112
+RG G +L
Sbjct: 450 QRGSASGKRSIL 461
>pdb|3IZS|J Chain J, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O5H|L Chain L, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3J16|H Chain H, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 165
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 28 VNARQQTERDVKKEKR-------KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGV 80
+ A ++ RD KK+K +L + ++ + ++ + +GR +T I+GTA S G
Sbjct: 82 ITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKEILGTAQSVGC 141
Query: 81 YYYF 84
F
Sbjct: 142 RVDF 145
>pdb|3BRY|A Chain A, Crystal Structure Of The Ralstonia Pickettii Toluene
Transporter Tbux
pdb|3BRY|B Chain B, Crystal Structure Of The Ralstonia Pickettii Toluene
Transporter Tbux
Length = 441
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 44 KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQGVYYYF 84
LGT+ + Q+ G GR+ G L P+++G G Y F
Sbjct: 164 NLGTLLDVSQIGTLAGQGRVSGTLVPTLLGVPGLSGGYIDF 204
>pdb|3JYW|K Chain K, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
pdb|3J2K|8 Chain 8, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 138
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 28 VNARQQTERDVKKEKR-------KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQG 79
+ A ++ RD KK+K +L + ++ + ++ + +GR +T I+GTA S G
Sbjct: 76 ITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKEILGTAQSVG 134
>pdb|1S1I|K Chain K, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h
Length = 131
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 7/59 (11%)
Query: 28 VNARQQTERDVKKEKR-------KLGTVAQMCQVVKHEGWGRLYGGLTPSIVGTAASQG 79
+ A ++ RD KK+K +L + ++ + ++ + +GR +T I+GTA S G
Sbjct: 70 ITALKEPPRDRKKDKNVKHSGNIQLDEIIEIARQMRDKSFGRTLASVTKEILGTAQSVG 128
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
0.320 0.134 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,664,464
Number of Sequences: 62578
Number of extensions: 322691
Number of successful extensions: 734
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 727
Number of HSP's gapped (non-prelim): 12
length of query: 338
length of database: 14,973,337
effective HSP length: 99
effective length of query: 239
effective length of database: 8,778,115
effective search space: 2097969485
effective search space used: 2097969485
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: 52 (24.6 bits)