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= psy2165
(145 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R08|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|1R09|1 Chain 1, Human Rhinovirus 14 Complexed With Antiviral Compound R
61837
pdb|2R04|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2R06|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2R07|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RM2|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RR1|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RS1|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RS3|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|2RS5|1 Chain 1, Structural Analysis Of Antiviral Agents That Interact With
The Capsid Of Human Rhinoviruses
pdb|4RHV|1 Chain 1, The Use Of Molecular-Replacement Phases For The Refinement
Of The Human Rhinovirus 14 Structure
pdb|1HRI|1 Chain 1, Structure Determination Of Antiviral Compound Sch 38057
Complexed With Human Rhinovirus 14
pdb|2HWB|1 Chain 1, A Comparison Of The Anti-Rhinoviral Drug Binding Pocket In
Hrv14 And Hrv1a
pdb|2HWC|1 Chain 1, A Comparison Of The Anti-Rhinoviral Drug Binding Pocket In
Hrv14 And Hrv1a
pdb|1HRV|1 Chain 1, Hrv14SDZ 35-682 Complex
pdb|1VRH|1 Chain 1, Hrv14/sdz 880-061 Complex
pdb|1RVF|1 Chain 1, Fab Complexed With Intact Human Rhinovirus
pdb|1D3I|1 Chain 1, Cryo-Em Structure Of Human Rhinovirus 14 (Hrv14) Complexed
With A Two-Domain Fragment Of Its Cellular Receptor,
Intercellular Adhesion Molecule-1 (D1d2-Icam-1).
Implications For Virus-Receptor Interactions. Alpha
Carbons Only
pdb|1K5M|A Chain A, Crystal Structure Of A Human Rhinovirus Type 14:human
Immunodeficiency Virus Type 1 V3 Loop Chimeric Virus Mn-
Iii-2
pdb|1NA1|A Chain A, The Structure Of Hrv14 When Complexed With Pleconaril
pdb|1NCQ|A Chain A, The Structure Of Hrv14 When Complexed With Pleconaril, An
Antiviral Compound
Length = 289
Score = 30.8 bits (68), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 14 CFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY--- 69
CFY G + DD + + + H+ + A+ IV+E H+EH L+K +
Sbjct: 199 CFYDG-----------YSHDDAETQYGITVLNHMGSMAFRIVNE-HDEHKTLVKIRVYHR 246
Query: 70 ------WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 247 AKHVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|1RUD|1 Chain 1, Rhinovirus 14 Mutant N1105s Complexed With Antiviral
Compound Win 52084
pdb|1RUC|1 Chain 1, Rhinovirus 14 Mutant N1105s Complexed With Antiviral
Compound Win 52035
Length = 289
Score = 30.4 bits (67), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 14 CFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY--- 69
CFY G + DD + + + H+ + A+ IV+E H+EH L+K +
Sbjct: 199 CFYDG-----------YSHDDAETQYGITVLNHMGSMAFRIVNE-HDEHKTLVKIRVYHR 246
Query: 70 ------WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 247 AKHVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|2RMU|1 Chain 1, Three-Dimensional Structures Of Drug-Resistant Mutants Of
Human Rhinovirus 14
Length = 289
Score = 30.4 bits (67), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 14 CFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY--- 69
CFY G + DD + + + H+ + A+ IV+E H+EH L+K +
Sbjct: 199 CFYDG-----------YSHDDAETQYGITVLNHMGSMAFRIVNE-HDEHKTLVKIRVYHR 246
Query: 70 ------WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 247 AKHVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|1RUH|1 Chain 1, Rhinovirus 14 Mutant N1219s Complexed With Antiviral
Compound Win 52084
pdb|1RUG|1 Chain 1, Rhinovirus 14 Mutant N1219s Complexed With Antiviral
Compound Win 52035
Length = 289
Score = 30.4 bits (67), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 14 CFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY--- 69
CFY G + DD + + + H+ + A+ IV+E H+EH L+K +
Sbjct: 199 CFYDG-----------YSHDDAETQYGITVLSHMGSMAFRIVNE-HDEHKTLVKIRVYHR 246
Query: 70 ------WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 247 AKHVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|1RUJ|1 Chain 1, Rhinovirus 14 Mutant With Ser 1 223 Replaced By Gly
(S1223g)
pdb|1RUI|1 Chain 1, Rhinovirus 14 Mutant S1223g Complexed With Antiviral
Compound Win 52084
Length = 289
Score = 30.4 bits (67), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 42/102 (41%), Gaps = 25/102 (24%)
Query: 14 CFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY--- 69
CFY G + DD + + + H+ A+ IV+E H+EH L+K +
Sbjct: 199 CFYDG-----------YSHDDAETQYGITVLNHMGGMAFRIVNE-HDEHKTLVKIRVYHR 246
Query: 70 ------WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 247 AKHVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|1RUF|1 Chain 1, Rhinovirus 14 (Hrv14) (Mutant With Asn 1 219 Replaced By
Ala (N219a In Chain 1)
pdb|1RUE|1 Chain 1, Rhinovirus 14 Site Directed Mutant N1219a Complexed With
Antiviral Compound Win 52035
Length = 289
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 43/102 (42%), Gaps = 25/102 (24%)
Query: 14 CFYLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY--- 69
CFY G + DD + + + H+ + A+ IV+E H+EH L+K +
Sbjct: 199 CFYDG-----------YSHDDAETQYGITVLAHMGSMAFRIVNE-HDEHKTLVKIRVYHR 246
Query: 70 ------WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 247 AKHVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|1RMU|1 Chain 1, Three-Dimensional Structures Of Drug-Resistant Mutants Of
Human Rhinovirus 14
Length = 289
Score = 30.0 bits (66), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 14/100 (14%)
Query: 16 YLGWLKVAEVLIGPFGEDDDDIELNWLIDRHIKA-AYMIVDEMHEEHPELLKDQY----- 69
Y+G + DD + + + H+ + A+ IV+E H+EH L+K +
Sbjct: 190 YVGLASAYNYFYDGYSHDDAETQYGITVLNHMGSMAFRIVNE-HDEHKTLVKIRVYHRAK 248
Query: 70 ----WDEVVPKDLPYTLASECYRRSEPKGSAEFYKVKEAD 105
W P+ LPYT R + PK + K ++ D
Sbjct: 249 HVEAWIPRAPRALPYT---SIGRTNYPKNTEPVIKKRKGD 285
>pdb|1PZW|A Chain A, Crystal Structure Of The Zinc Finger Associated Domain Of
The Drosophila Transcription Factor Grauzone
Length = 80
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 37/78 (47%), Gaps = 9/78 (11%)
Query: 42 LIDRHIKAAYMI-----VDEMHEEHPELLKDQYWDEVVPKD-LPYTLASECYRRSEPKGS 95
L R + A M VD + E+L+ +W EV+P D + + + C+ ++
Sbjct: 5 LCLRGVSGAQMCLQIFDVDSGESKVAEVLRQHFWFEVLPNDEISKVICNVCW--TQVSEF 62
Query: 96 AEFY-KVKEADSLYANIT 112
+FY ++EA +YA +
Sbjct: 63 HQFYVSIQEAQVIYATTS 80
>pdb|3MOE|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Beta-Sulfopyruvate And Gtp
pdb|3MOF|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Oxalate And Gtp
pdb|3MOF|B Chain B, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Oxalate And Gtp
pdb|3MOH|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Phosphoglycolate And Gdp
pdb|3MOH|B Chain B, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Phosphoglycolate And Gdp
Length = 624
Score = 26.9 bits (58), Expect = 3.7, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 34 DDDIELNWLIDRHIKAAYMIVDEMHEEHPELLKDQYWDEVVPKDLPYTLASE 85
+D + L L D +++ + I E E+ E + D+Y ++ V DLPY + E
Sbjct: 563 EDALNLKGLGDVNVEELFGISKEFWEKEVEEI-DKYLEDQVNADLPYEIERE 613
>pdb|2QF2|A Chain A, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid And
Gdp.
pdb|2QF2|B Chain B, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid And
Gdp.
pdb|2QEW|A Chain A, Rat Cytosolic Pepck, In Complex With Manganese Ion.
pdb|2QEY|A Chain A, Rat Cytosolic Pepck In Complex With Gtp
pdb|2QF1|A Chain A, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid.
pdb|2RK7|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate
pdb|2RK7|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate
pdb|2RK8|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphonoformate
pdb|2RK8|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphonoformate
pdb|2RKA|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate
pdb|2RKA|C Chain C, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate
pdb|2RKD|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With 3-
Phosphonopropionate
pdb|2RKE|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Sulfoacetate.
pdb|3DT2|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT4|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT4|C Chain C, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT7|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With Beta-
Sulfopyruvate And Gtp
pdb|3DT7|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With Beta-
Sulfopyruvate And Gtp
pdb|3DTB|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate And Gdp
pdb|3DTB|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate And Gdp
Length = 624
Score = 26.9 bits (58), Expect = 3.9, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 1/52 (1%)
Query: 34 DDDIELNWLIDRHIKAAYMIVDEMHEEHPELLKDQYWDEVVPKDLPYTLASE 85
+D + L L D +++ + I E E+ E + D+Y ++ V DLPY + E
Sbjct: 563 EDALNLKGLGDVNVEELFGISKEFWEKEVEEI-DKYLEDQVNADLPYEIERE 613
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain)
pdb|3H3D|Y Chain Y, Drosophila Pumilio Rna Binding Domain (Puf Domain)
Length = 323
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 19/28 (67%)
Query: 53 IVDEMHEEHPELLKDQYWDEVVPKDLPY 80
I+DE+HE +L++DQY + V+ L +
Sbjct: 200 ILDELHEHTEQLIQDQYGNYVIQHVLEH 227
>pdb|1VJV|A Chain A, Crystal Structure Of Ubiquitin Carboxyl-terminal Hydrolase
6 (yfr010w) From Saccharomyces Cerevisiae At 1.74 A
Resolution
Length = 415
Score = 25.8 bits (55), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)
Query: 63 ELLKDQYWDEVVPKDLPYTLASECYRR-SEPKGSAEFYKVKEADSLYANITSRRKSVAPD 121
E L+++ + V+P L TL +CY + +E FYK ++A+ L+ + V D
Sbjct: 85 ENLQNKSFKSVLPVVLLNTL-RKCYPQFAERDSQGGFYKQQDAEELFTQLFHSXSIVFGD 143
Query: 122 DVYADYEIEW 131
D+ I++
Sbjct: 144 KFSEDFRIQF 153
>pdb|1IGT|B Chain B, Structure Of Immunoglobulin
pdb|1IGT|D Chain D, Structure Of Immunoglobulin
Length = 444
Score = 25.8 bits (55), Expect = 8.7, Method: Composition-based stats.
Identities = 25/121 (20%), Positives = 48/121 (39%), Gaps = 28/121 (23%)
Query: 32 EDDDDIELNWLID-------------RHIKAAYMIVDEMHEEHPELLKDQYWD-EVVPKD 77
EDD D++++W ++ + +V + +H + + + + +V KD
Sbjct: 269 EDDPDVQISWFVNNVEVHTAQTQTHREDYNSTLRVVSALPIQHQDWMSGKEFKCKVNNKD 328
Query: 78 LPYTLASECYRRSEPKGSAEFYKV-------KEADSLYANITSRRKSVAPDDVYADYEIE 130
LP + S+PKGS +V +E +T P+D+Y +E
Sbjct: 329 LPAPIERTI---SKPKGSVRAPQVYVLPPPEEEMTKKQVTLTCMVTDFMPEDIY----VE 381
Query: 131 W 131
W
Sbjct: 382 W 382
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 25.8 bits (55), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 8/41 (19%)
Query: 48 KAAYMIVDEMHEEHPEL--------LKDQYWDEVVPKDLPY 80
K ++DE+H++HPEL LK DE+V L Y
Sbjct: 139 KNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKY 179
>pdb|3R9W|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp And
Nucleotides 1506- 1542 Of 16s Ribosomal Rna
pdb|3R9X|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp,
Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
Length = 307
Score = 25.8 bits (55), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 8/41 (19%)
Query: 48 KAAYMIVDEMHEEHPEL--------LKDQYWDEVVPKDLPY 80
K ++DE+H++HPEL LK DE+V L Y
Sbjct: 138 KNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKY 178
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
0.322 0.141 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,816,527
Number of Sequences: 62578
Number of extensions: 199922
Number of successful extensions: 407
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 27
length of query: 145
length of database: 14,973,337
effective HSP length: 89
effective length of query: 56
effective length of database: 9,403,895
effective search space: 526618120
effective search space used: 526618120
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)