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= 014977
(415 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AV8|A Chain A, Kluyveromyces Lactis Hsv2 Complete Loop 6cd
pdb|4AV9|A Chain A, Kluyveromyces Lactis Hsv2
pdb|4EXV|A Chain A, Structure Of Kluyveromyces Lactis Hsv2p
Length = 339
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 71/251 (28%), Positives = 110/251 (43%), Gaps = 21/251 (8%)
Query: 47 LISVSWNQDYGCFAAGTSCGFRIYNCEPFKETFRRDLKSGGFRIVEMLFRCNILALVGAG 106
++ +NQD C T F IYN P K +++ G + ML R N +A V
Sbjct: 17 IVDYEFNQDQSCLIVSTPKSFDIYNVHPLKRIMSQEMPDAG--TIRMLHRTNYIAFVSTK 74
Query: 107 DNSQYPPTKVIIWDDHQSRCIGEFAFRSDVRSVKLSRDRIVVVLEHKIYVYSFVDL--KL 164
+ IWDD + + I + V+ + LSR+ IVV I ++ F + K+
Sbjct: 75 KELLH------IWDDVKKQDITRVKLDAAVKDLFLSREFIVVSQGDVISIFKFGNPWNKI 128
Query: 165 LHQIE-----TLANLRGLCCLSHHSSTSVLACPGLQRGQVRIEHFGLNMIKLINAHDSHI 219
I+ AN GL S+ + + LQ ++ G+ L+ AH + +
Sbjct: 129 TEDIKFGGVCEFAN--GLLVYSNEFNLGQIHVTRLQTDAEQVVGKGV----LVKAHANPV 182
Query: 220 ACFXXXXXXXXXXXXXXRGTLIRIFNTVDGTRLQEVRRGVDRAEIYSIALSPNVQWLAVA 279
GTLIR+F T +G ++E RRG+DR I + SP+ LAV
Sbjct: 183 KMVRLNRKGDMVATCSQDGTLIRVFQTDNGVLVREFRRGLDRTSIIDMRWSPDGSKLAVV 242
Query: 280 SDKGTVHIFSL 290
SDK T+H+F +
Sbjct: 243 SDKWTLHVFEV 253
>pdb|3VU4|A Chain A, Crystal Structure Of Kluyvelomyces Marxianus Hsv2
pdb|3VU4|B Chain B, Crystal Structure Of Kluyvelomyces Marxianus Hsv2
Length = 355
Score = 80.9 bits (198), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 71/252 (28%), Positives = 104/252 (41%), Gaps = 24/252 (9%)
Query: 53 NQDYGCFAAGTSCGFRIYNCEPFKETFRRDLKSGGFRIVEMLFRCNILALVGAGDNSQYP 112
NQD C T F IYN P ++++ V ML R N +A V
Sbjct: 28 NQDQSCLILSTLKSFEIYNVHPVAHIMSQEMRH--LSKVRMLHRTNYVAFVTG------V 79
Query: 113 PTKVIIWDDHQSRCIGEFAFRSDVRSVKLSRDRIVVVLEHKIYVYSF-------VDLKLL 165
V IWDD + + + + V+ + LSR+ IVV I V+ F D
Sbjct: 80 KEVVHIWDDVKKQDVSRIKVDAPVKDLFLSREFIVVSYGDVISVFKFGNPWKRITDDIRF 139
Query: 166 HQIETLANLRGLCCLSHHSSTSVLACPGLQR-GQVRIEHFGLNMIK------LINAHDSH 218
+ +N GL S+ + + LQ G + G+ LI AH +
Sbjct: 140 GGVCEFSN--GLLVYSNEFNLGQIHITKLQSSGSATTQDQGVQQKAILGKGVLIKAHTNP 197
Query: 219 IACFXXXXXXXXXXXXXXRGTLIRIFNTVDGTRLQEVRRGVDRAEIYSIALSPNVQWLAV 278
I GT+IR+F T DG ++E RRG+DRA++ + S + LAV
Sbjct: 198 IKMVRLNRKSDMVATCSQDGTIIRVFKTEDGVLVREFRRGLDRADVVDMKWSTDGSKLAV 257
Query: 279 ASDKGTVHIFSL 290
SDK T+H+F +
Sbjct: 258 VSDKWTLHVFEI 269
>pdb|3OW8|A Chain A, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|B Chain B, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|C Chain C, Crystal Structure Of The Wd Repeat-Containing Protein 61
pdb|3OW8|D Chain D, Crystal Structure Of The Wd Repeat-Containing Protein 61
Length = 321
Score = 32.3 bits (72), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 241 IRIFNTVDGTRLQEVRRGVDRAEIYSIALSPNVQWLAVASDKGTVHIFSLR 291
IR+++ +G +++ + G + +++A SP+ Q+LA + G V+IF +
Sbjct: 104 IRLWDLENGKQIKSIDAG--PVDAWTLAFSPDSQYLATGTHVGKVNIFGVE 152
>pdb|3ZEY|7 Chain 7, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 318
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 240 LIRIFNTVDGTRLQEVRRGVDRAEIYSIALSPNVQWLAVASDKGTVHIFSLRVR 293
+ R+++ G L E+ G A I I SPN W+ A++KG + IF L +
Sbjct: 219 VARLWDLTKGEALSEMAAG---APINQICFSPNRYWMCAATEKG-IRIFDLENK 268
>pdb|3JYV|R Chain R, 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 = 313
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 263 EIYSIALSPNVQWLAVASDKGTVHIFSLRVRVVGED 298
E++S+A SPN WLA A+ G + +FSL + + +D
Sbjct: 233 EVFSLAFSPNRYWLAAATATG-IKVFSLDPQYLVDD 267
>pdb|3IZB|AA Chain a, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|T Chain T, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 319
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 263 EIYSIALSPNVQWLAVASDKGTVHIFSLRVRVVGED 298
E++S+A SPN WLA A+ G + +FSL + + +D
Sbjct: 239 EVFSLAFSPNRYWLAAATATG-IKVFSLDPQYLVDD 273
>pdb|1TRJ|A Chain A, Homology Model Of Yeast Rack1 Protein Fitted Into 11.7a
Cryo-em Map Of Yeast 80s Ribosome
Length = 314
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 263 EIYSIALSPNVQWLAVASDKGTVHIFSLRVRVVGED 298
E++S+A SPN WLA A+ G + +FSL + + +D
Sbjct: 239 EVFSLAFSPNRYWLAAATATG-IKVFSLDPQYLVDD 273
>pdb|3RFG|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
pdb|3RFG|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P63
Length = 319
Score = 32.0 bits (71), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 263 EIYSIALSPNVQWLAVASDKGTVHIFSLRVRVVGED 298
E++S+A SPN WLA A+ G + +FSL + + +D
Sbjct: 239 EVFSLAFSPNRYWLAAATATG-IKVFSLDPQYLVDD 273
>pdb|3RFH|A Chain A, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|B Chain B, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|C Chain C, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
pdb|3RFH|D Chain D, Crystal Structure Of The Yeast Rack1 Dimer In Space Group
P21
Length = 319
Score = 32.0 bits (71), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 263 EIYSIALSPNVQWLAVASDKGTVHIFSLRVRVVGED 298
E++S+A SPN WLA A+ G + +FSL + + +D
Sbjct: 239 EVFSLAFSPNRYWLAAATATG-IKVFSLDPQYLVDD 273
>pdb|3FRX|A Chain A, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1.
pdb|3FRX|B Chain B, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1.
pdb|3FRX|C Chain C, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1.
pdb|3FRX|D Chain D, Crystal Structure Of The Yeast Orthologue Of Rack1, Asc1
Length = 319
Score = 32.0 bits (71), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%), Gaps = 1/36 (2%)
Query: 263 EIYSIALSPNVQWLAVASDKGTVHIFSLRVRVVGED 298
E++S+A SPN WLA A+ G + +FSL + + +D
Sbjct: 239 EVFSLAFSPNRYWLAAATATG-IKVFSLDPQYLVDD 273
>pdb|2XZM|R Chain R, 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|R Chain R, 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 = 343
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 264 IYSIALSPNVQWLAVASDKGTVHIFSLRVR 293
I IA +P +QW+AV +D+G V IF+L +
Sbjct: 258 INQIAFNPKLQWVAVGTDQG-VKIFNLMTQ 286
>pdb|2FB2|A Chain A, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
pdb|2FB2|B Chain B, Structure Of The Moaa Arg17266268ALA TRIPLE MUTANT
Length = 340
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 340 GVLPKYFSSEWSFAQFHIPEVTHFIAAFGSQNTVVIVSMDGSFYRCSFDPVHG 392
G + KY+ + + QF + +T +F S T +S DG FY C F V G
Sbjct: 235 GEVAKYYRHKDNGVQFGL--ITSVSQSFCSTCTAAALSSDGKFYGCLFATVDG 285
>pdb|1U5T|B Chain B, Structure Of The Escrt-Ii Endosomal Trafficking Complex
Length = 169
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 141 LSRDRIVVVLEHKIYVYSFVDLKLL-----HQIETLANLRGLCCLSHHSSTSVLACPGLQ 195
L+++ + + +IY ++ + K L + I TL +L + S T +++ ++
Sbjct: 7 LNKELFLDEIAREIYEFTLSEFKDLNSDTNYMIITLVDLYAMYNKSMRIGTGLISPMEMR 66
Query: 196 RGQVRIEHFGLNMIKLINAHDSHIAC 221
R EH GLN +KL+ + I C
Sbjct: 67 EACERFEHLGLNELKLVKVN-KRILC 91
>pdb|1W7P|D Chain D, The Crystal Structure Of Endosomal Complex Escrt-Ii
(Vps22VPS25VPS36)
Length = 566
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 141 LSRDRIVVVLEHKIYVYSFVDLKLL-----HQIETLANLRGLCCLSHHSSTSVLACPGLQ 195
L+++ + + +IY ++ + K L + I TL +L + S T +++ ++
Sbjct: 402 LNKELFLDEIAREIYEFTLSEFKDLNSDTNYMIITLVDLYAMYNKSMRIGTGLISPMEMR 461
Query: 196 RGQVRIEHFGLNMIKLINAHDSHIAC 221
R EH GLN +KL+ + I C
Sbjct: 462 EACERFEHLGLNELKLVKV-NKRILC 486
>pdb|1TV7|A Chain A, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV7|B Chain B, Structure Of The S-adenosylmethionine Dependent Enzyme
Moaa
pdb|1TV8|A Chain A, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|1TV8|B Chain B, Structure Of Moaa In Complex With S-Adenosylmethionine
pdb|2FB3|A Chain A, Structure Of Moaa In Complex With 5'-Gtp
pdb|2FB3|B Chain B, Structure Of Moaa In Complex With 5'-Gtp
Length = 340
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 340 GVLPKYFSSEWSFAQFHIPEVTHFIAAFGSQNTVVIVSMDGSFYRCSFDPVHG 392
G + KY+ + + QF + +T +F S T +S DG FY C F V G
Sbjct: 235 GEVAKYYRHKDNGVQFGL--ITSVSQSFCSTCTRARLSSDGKFYGCLFATVDG 285
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
0.325 0.138 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,657,080
Number of Sequences: 62578
Number of extensions: 390879
Number of successful extensions: 981
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 964
Number of HSP's gapped (non-prelim): 21
length of query: 415
length of database: 14,973,337
effective HSP length: 101
effective length of query: 314
effective length of database: 8,652,959
effective search space: 2717029126
effective search space used: 2717029126
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)