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= psy11011
(134 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U5C|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|B Chain B, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 255
Score = 154 bits (389), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 77/127 (60%), Positives = 94/127 (74%), Gaps = 2/127 (1%)
Query: 2 FTNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGHN 61
F N+ VGKTLVN++ G K AS+ LK RV EV LADLQ +D SFRK +L ++VQG N
Sbjct: 38 FENRNVGKTLVNKSTGLKSASDALKGRVVEVCLADLQGSED--HSFRKIKLRVDEVQGKN 95
Query: 62 VLTNFHGMDLTTDKLRSMVKKWQTLIEANVDVKTTDGYLLRLFCIGFTHKDQLSQRKTCY 121
+LTNFHGMD TTDKLRSMV+KWQTLIEANV VKT+D Y+LR+F I FT K ++ Y
Sbjct: 96 LLTNFHGMDFTTDKLRSMVRKWQTLIEANVTVKTSDDYVLRIFAIAFTRKQANQVKRHSY 155
Query: 122 AQHNQIK 128
AQ + I+
Sbjct: 156 AQSSHIR 162
>pdb|2XZM|4 Chain 4, 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|4 Chain 4, 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 = 265
Score = 132 bits (333), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 62/130 (47%), Positives = 93/130 (71%), Gaps = 4/130 (3%)
Query: 2 FTNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGHN 61
F++K GKTLV ++ G +IASE +K RV E +LADL+ D ++++RK +L+ ++V G N
Sbjct: 40 FSSKSFGKTLVTKSSGNRIASEEIKGRVVESTLADLK-DNSNDKAWRKVKLVIDEVDGRN 98
Query: 62 VLTNFHGMDLTTDKLRSMVKKWQTLIEANVDVKTTDGYLLRLFCIGFTHKDQL---SQRK 118
T+F+G+D+T D+L SM++KWQTLIEA VD KT DGY++R+F + FT K S
Sbjct: 99 AKTSFYGLDITRDRLCSMIRKWQTLIEARVDCKTNDGYIIRVFTLAFTKKTSAGKQSSTS 158
Query: 119 TCYAQHNQIK 128
TCYA+ +Q++
Sbjct: 159 TCYAKSSQVR 168
>pdb|3ZEY|0 Chain 0, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 256
Score = 130 bits (328), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 61/127 (48%), Positives = 88/127 (69%)
Query: 2 FTNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGHN 61
F +Q KT+ N+TQGTKIA++ L+ RV+E +LADL Q+ + ++RK + ++VQG N
Sbjct: 38 FEVRQFAKTICNKTQGTKIAADFLRGRVYEGNLADLNKTQNEDDAYRKVKFTVQEVQGRN 97
Query: 62 VLTNFHGMDLTTDKLRSMVKKWQTLIEANVDVKTTDGYLLRLFCIGFTHKDQLSQRKTCY 121
+LT FHGMD+T+D++ +++KW T IEA V+ KT DGY LRLF I FT K + K CY
Sbjct: 98 LLTQFHGMDMTSDRVYYLLRKWCTTIEATVEAKTADGYGLRLFLIAFTKKQENQLSKNCY 157
Query: 122 AQHNQIK 128
A+ +K
Sbjct: 158 AKTRLVK 164
>pdb|3J20|A Chain A, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 198
Score = 52.8 bits (125), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 33/100 (33%), Positives = 50/100 (50%), Gaps = 3/100 (3%)
Query: 22 SEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGHNVLTNFHGMDLTTDKLRSMVK 81
E + +RV EV+L D+ D +S K DV+G N T F GM L +RS+V+
Sbjct: 40 PEKVLNRVVEVTLKDVTGD--FTKSHVKLYFQVYDVKGQNAYTKFKGMKLARSYIRSLVR 97
Query: 82 KWQTLIEANVDVKTTDGYLLRLFCIGFTHKD-QLSQRKTC 120
+ T I+ ++ T DGY LR+ + + Q SQ +
Sbjct: 98 RKTTRIDGIFNITTKDGYKLRVMAMAIAMRRIQTSQERAI 137
>pdb|3PHF|A Chain A, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|C Chain C, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|E Chain E, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|G Chain G, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|I Chain I, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|K Chain K, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|M Chain M, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|O Chain O, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|Q Chain Q, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|S Chain S, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|U Chain U, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|W Chain W, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|Y Chain Y, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|1 Chain 1, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|3 Chain 3, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
pdb|3PHF|5 Chain 5, Crystal Structure Of The Epstein-Barr Virus Gh And Gl
Complex
Length = 653
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 70 DLTTDKLRSMVKKWQTLIEANVDVKTTDGYLLRL 103
DLT DKL SM + TL +A V DG+L RL
Sbjct: 466 DLTRDKLLSMAPQEATLDQAAVS-NAVDGFLGRL 498
>pdb|3ATQ|A Chain A, Geranylgeranyl Reductase (Ggr) From Sulfolobus
Acidocaldarius
pdb|3ATR|A Chain A, Geranylgeranyl Reductase (Ggr) From Sulfolobus
Acidocaldarius Co- Crystallized With Its Ligand
Length = 453
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 11/36 (30%), Positives = 22/36 (61%)
Query: 31 EVSLADLQSDQDAERSFRKFRLIAEDVQGHNVLTNF 66
E+ + + D+DA+ ++R+ L ED++ H+ L F
Sbjct: 171 ELPITEDLDDKDADVAYREVLLTKEDIEDHDYLRIF 206
>pdb|3HAJ|A Chain A, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121
Lattice)
pdb|3HAJ|B Chain B, Crystal Structure Of Human Pacsin2 F-Bar Domain (P212121
Lattice)
Length = 486
Score = 26.6 bits (57), Expect = 4.6, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 3 TNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGHNV 62
T ++ K+L QGT E ++ +VFE Q Q E+ R FR + +VQ H
Sbjct: 204 TKEKYEKSLKELDQGTPQYMENME-QVFE------QCQQFEEKRLRFFREVLLEVQKHLD 256
Query: 63 LTNFHG 68
L+N G
Sbjct: 257 LSNVAG 262
>pdb|3TQC|A Chain A, Structure Of The Pantothenate Kinase (Coaa) From Coxiella
Burnetii
pdb|3TQC|B Chain B, Structure Of The Pantothenate Kinase (Coaa) From Coxiella
Burnetii
Length = 321
Score = 26.6 bits (57), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 68 GMDLTTDKLRSMVKKWQTLIEANVDVKTTDGYL 100
G T+ L++++ +W NV+V TTDG+L
Sbjct: 104 GKSTTSRVLKALLSRWPD--HPNVEVITTDGFL 134
>pdb|3Q0K|A Chain A, Crystal Structure Of Human Pacsin 2 F-Bar
pdb|3Q0K|B Chain B, Crystal Structure Of Human Pacsin 2 F-Bar
pdb|3Q0K|C Chain C, Crystal Structure Of Human Pacsin 2 F-Bar
pdb|3Q0K|D Chain D, Crystal Structure Of Human Pacsin 2 F-Bar
Length = 289
Score = 26.2 bits (56), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 32/66 (48%), Gaps = 7/66 (10%)
Query: 3 TNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGHNV 62
T ++ K+L QGT E ++ +VFE Q Q E+ R FR + +VQ H
Sbjct: 189 TKEKYEKSLKELDQGTPQYMENME-QVFE------QCQQFEEKRLRFFREVLLEVQKHLD 241
Query: 63 LTNFHG 68
L+N G
Sbjct: 242 LSNVAG 247
>pdb|2R8Q|A Chain A, Structure Of Lmjpdeb1 In Complex With Ibmx
pdb|2R8Q|B Chain B, Structure Of Lmjpdeb1 In Complex With Ibmx
Length = 359
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 66 FHGMDLTTDKLRSMVKKWQTLIEANVD 92
FHGM D + S KWQ +++ D
Sbjct: 326 FHGMQWCVDTVNSNRAKWQEILDGRRD 352
>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
pdb|2XTO|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 21-260
Length = 240
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 30/76 (39%)
Query: 1 MFTNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGH 60
MF+ K + L Q + S H + V+ + QD + + R + ED GH
Sbjct: 61 MFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGH 120
Query: 61 NVLTNFHGMDLTTDKL 76
++ H DL L
Sbjct: 121 TIVLFTHKEDLNGGSL 136
>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTM|B Chain B, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid
Residues 1-234
pdb|2XTN|A Chain A, Crystal Structure Of Gtp-Bound Human Gimap2, Amino Acid
Residues 1-234
Length = 234
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 30/76 (39%)
Query: 1 MFTNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGH 60
MF+ K + L Q + S H + V+ + QD + + R + ED GH
Sbjct: 81 MFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGH 140
Query: 61 NVLTNFHGMDLTTDKL 76
++ H DL L
Sbjct: 141 TIVLFTHKEDLNGGSL 156
>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|B Chain B, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|C Chain C, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
pdb|3P1J|D Chain D, Crystal Structure Of Human Gtpase Imap Family Member 2 In
The Nucleotide-Free State
Length = 209
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 30/76 (39%)
Query: 1 MFTNKQVGKTLVNRTQGTKIASEGLKHRVFEVSLADLQSDQDAERSFRKFRLIAEDVQGH 60
MF+ K + L Q + S H + V+ + QD + + R + ED GH
Sbjct: 64 MFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGH 123
Query: 61 NVLTNFHGMDLTTDKL 76
++ H DL L
Sbjct: 124 TIVLFTHKEDLNGGSL 139
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
0.321 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,538,810
Number of Sequences: 62578
Number of extensions: 122467
Number of successful extensions: 384
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 373
Number of HSP's gapped (non-prelim): 17
length of query: 134
length of database: 14,973,337
effective HSP length: 88
effective length of query: 46
effective length of database: 9,466,473
effective search space: 435457758
effective search space used: 435457758
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)