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= psy2574
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZB|X Chain X, Localization Of The Small Subunit Ribosomal Proteins
Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3U5C|BB 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|BB Chain b, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 82
Score = 116 bits (290), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 53/75 (70%), Positives = 60/75 (80%)
Query: 1 MPLAKDLLHPSQAEEKRKHKLKRLVQHPNSYFMDVKCPGCYKITTVFSHAQSVVICAGCS 60
M L +DLLHP+ A E RKHKLK LVQ P SYF+DVKCPGC ITTVFSHAQ+ V C CS
Sbjct: 1 MVLVQDLLHPTAASEARKHKLKTLVQGPRSYFLDVKCPGCLNITTVFSHAQTAVTCESCS 60
Query: 61 TILCQPTGGRARLTE 75
TILC PTGG+A+L+E
Sbjct: 61 TILCTPTGGKAKLSE 75
>pdb|3IZ6|X Chain X, Localization Of The Small Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 86
Score = 101 bits (251), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 51/70 (72%), Positives = 59/70 (84%)
Query: 6 DLLHPSQAEEKRKHKLKRLVQHPNSYFMDVKCPGCYKITTVFSHAQSVVICAGCSTILCQ 65
DLL+P EK KHK KRLVQ PNS+FMDVKC GC+ ITTVFSH+Q+VV+C GC T+LCQ
Sbjct: 8 DLLNPPAELEKLKHKKKRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPGCQTVLCQ 67
Query: 66 PTGGRARLTE 75
PTGG+ARLTE
Sbjct: 68 PTGGKARLTE 77
>pdb|2XZM|6 Chain 6, 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|6 Chain 6, 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 = 81
Score = 97.8 bits (242), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 41/71 (57%), Positives = 54/71 (76%)
Query: 3 LAKDLLHPSQAEEKRKHKLKRLVQHPNSYFMDVKCPGCYKITTVFSHAQSVVICAGCSTI 62
+ +DLL+P EEK+K+K KRL+Q PNSYFMDVKC C I +FS+AQS +IC CS I
Sbjct: 1 MERDLLNPIYEEEKQKNKFKRLIQAPNSYFMDVKCAQCQNIQMIFSNAQSTIICEKCSAI 60
Query: 63 LCQPTGGRARL 73
LC+PTGG+ ++
Sbjct: 61 LCKPTGGKVQI 71
>pdb|3ZEY|W Chain W, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 86
Score = 96.3 bits (238), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 44/69 (63%), Positives = 53/69 (76%)
Query: 6 DLLHPSQAEEKRKHKLKRLVQHPNSYFMDVKCPGCYKITTVFSHAQSVVICAGCSTILCQ 65
DL +P+ E+ KHK +RLVQ PNSYFMDVKCPGC IT V+SHA S V C GC+T+LC+
Sbjct: 7 DLSYPTVRTERMKHKRRRLVQGPNSYFMDVKCPGCKNITVVYSHATSEVKCNGCATLLCR 66
Query: 66 PTGGRARLT 74
PTGG+A L
Sbjct: 67 PTGGKAMLV 75
>pdb|3J20|W Chain W, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 63
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%)
Query: 22 KRLVQHPNSYFMDVKCPGCYKITTVFSHAQSVVICAGCSTILCQPTGGRA 71
K ++ P S F+ VKC C VFSH + V C C L +PTGG+
Sbjct: 3 KPIIPMPRSRFLRVKCIDCGNEQIVFSHPATKVRCLICGATLVEPTGGKG 52
>pdb|1QXF|A Chain A, Solution Structure Of 30s Ribosomal Protein S27e From
Archaeoglobus Fulgidus: Gr2, A Nesg Target Protein
Length = 66
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 29 NSYFMDVKCPGCYKITTVFSHAQSVVICAGCSTILCQPTGGRARL 73
+S F+ VKCP C +F H ++V C C + +PTGG+ +
Sbjct: 2 HSRFVKVKCPDCEHEQVIFDHPSTIVKCIICGRTVAEPTGGKGNI 46
>pdb|4AFR|A Chain A, The Structure Of Metacaspase 2 (C213a Mutant) From T.
Brucei
pdb|4AFV|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Calcium Chloride
Length = 367
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 8/61 (13%)
Query: 36 KCPGCYKITTVF--SHAQSVV------ICAGCSTILCQPTGGRARLTEDDTGDSMTVRGC 87
+ P ++T VF +H+ S++ +C+G P R R D GD M + GC
Sbjct: 219 RLPEKVRLTAVFDCAHSGSIMDLPFTYVCSGGEQASGTPHMKRIREGNDVLGDVMMISGC 278
Query: 88 A 88
A
Sbjct: 279 A 279
>pdb|4AFP|A Chain A, The Structure Of Metacaspase 2 From T. Brucei Determined
In The Presence Of Samarium
Length = 367
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 36 KCPGCYKITTVF--SHAQSVV------ICAGCSTILCQPTGGRARLTEDDTGDSMTVRGC 87
+ P ++T VF H+ S++ +C+G P R R D GD M + GC
Sbjct: 219 RLPEKVRLTAVFDCGHSGSIMDLPFTYVCSGGEQASGTPHMKRIREGNDVLGDVMMISGC 278
Query: 88 A 88
A
Sbjct: 279 A 279
>pdb|4AF8|A Chain A, The Structural Basis For Metacaspase Substrate Specificity
And Activation
Length = 367
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 36 KCPGCYKITTVF--SHAQSVV------ICAGCSTILCQPTGGRARLTEDDTGDSMTVRGC 87
+ P ++T VF H+ S++ +C+G P R R D GD M + GC
Sbjct: 219 RLPEKVRLTAVFDCGHSGSIMDLPFTYVCSGGEQASGTPHMKRIREGNDVLGDVMMISGC 278
Query: 88 A 88
A
Sbjct: 279 A 279
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 0.135 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,674,011
Number of Sequences: 62578
Number of extensions: 134057
Number of successful extensions: 218
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 211
Number of HSP's gapped (non-prelim): 11
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
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: 45 (21.9 bits)