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= 032455
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U5C|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|H Chain H, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 190
Score = 149 bits (377), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 74/138 (53%), Positives = 99/138 (71%), Gaps = 2/138 (1%)
Query: 1 MDVSGNRKAIVVYVPYRLRKAYRKIHSRLVRELEKKFSGKDVVLIATRRIVRPPKKGS-A 59
+DV+G +KA+ ++VP + K+ ++L RELEKKF + V+ +A RRI+ P + S
Sbjct: 49 IDVAGGKKALAIFVPVPSLAGFHKVQTKLTRELEKKFQDRHVIFLAERRILPKPSRTSRQ 108
Query: 60 VQ-RPRSRTLTAVHDAMLEDVVYPAEIVGKRVRYRLDGSKIIKIFLDPKERNNTEYKLES 118
VQ RPRSRTLTAVHD +LED+V+P EIVGKRVRY + G+KI K+ LD K+ +YKLES
Sbjct: 109 VQKRPRSRTLTAVHDKILEDLVFPTEIVGKRVRYLVGGNKIQKVLLDSKDVQQIDYKLES 168
Query: 119 FSGVYRKLTGKDVVFDYP 136
F VY KLTGK +VF+ P
Sbjct: 169 FQAVYNKLTGKQIVFEIP 186
>pdb|3ZEY|4 Chain 4, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 202
Score = 104 bits (259), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 54/128 (42%), Positives = 80/128 (62%), Gaps = 1/128 (0%)
Query: 9 AIVVYVPYRLRKAYRKIHSRLVRELEKKFSGKDVVLIATRRIVRPPKKGSAVQR-PRSRT 67
A+++ P R RKI L ELEK+F G VVL+A R+I + P +Q+ RSRT
Sbjct: 63 AMIILYPLRFIMLVRKIQRTLTAELEKRFPGNIVVLVAQRKITKRPNDVYKLQQVQRSRT 122
Query: 68 LTAVHDAMLEDVVYPAEIVGKRVRYRLDGSKIIKIFLDPKERNNTEYKLESFSGVYRKLT 127
AV + +L D++YP ++VG+R RYR DGSK++K+FLD ++R E +L + VY+ LT
Sbjct: 123 SVAVFENILNDLIYPCDVVGRRWRYRTDGSKLMKVFLDARDRKRVESRLPLLAHVYKLLT 182
Query: 128 GKDVVFDY 135
+ V F +
Sbjct: 183 HRTVTFGF 190
>pdb|2XZM|3 Chain 3, 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|3 Chain 3, 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 = 197
Score = 82.4 bits (202), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 49/134 (36%), Positives = 87/134 (64%), Gaps = 10/134 (7%)
Query: 7 RKAIVVYVPYRLRKAYRKIHS---RLVRELEKKFSGKDVVLIATRRIVRPP--KKGSAVQ 61
+ A+++YV ++ +YR + S +L+ ELEKK K +V +R + K+ + Q
Sbjct: 58 KSAVLIYVHFQ---SYRVLLSAARKLIIELEKKL--KQIVFFTAQRKIESKWVKEHKSQQ 112
Query: 62 RPRSRTLTAVHDAMLEDVVYPAEIVGKRVRYRLDGSKIIKIFLDPKERNNTEYKLESFSG 121
RPRSR LT V+DA+L+D++ P+ ++GKR+R RLDG+ +I LD +R+ E KL++ +
Sbjct: 113 RPRSRCLTYVYDALLDDLLLPSTLIGKRIRARLDGTSFYRIQLDQNDRDFLEEKLDAITH 172
Query: 122 VYRKLTGKDVVFDY 135
+Y+ +T ++V F++
Sbjct: 173 IYKTVTTREVTFEF 186
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 31 RELEKKFSGKDVVLIATRRIVRPPKKGSAVQRPRSRTLTAVHDA 74
RE +K + KD+ A R ++ P KK S V PR R +TA H+A
Sbjct: 253 REGRRKITMKDLEEAADRVMMLPAKK-SLVLSPRDRRITAYHEA 295
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 31 RELEKKFSGKDVVLIATRRIVRPPKKGSAVQRPRSRTLTAVHDA 74
RE +K + KD+ A R ++ P KK S V PR R +TA H+A
Sbjct: 262 REGRRKITMKDLEEAADRVMMLPAKK-SLVLSPRDRRITAYHEA 304
>pdb|3OJ7|A Chain A, Crystal Structure Of A Histidine Triad Family Protein
From Entamoeba Histolytica, Bound To Sulfate
pdb|3OMF|A Chain A, Crystal Structure Of A Histidine Triad Family Protein
From Entamoeba Histolytica, Bound To Amp
pdb|3OXK|A Chain A, Crystal Structure Of A Histidine Triad Family Protein
From Entamoeba Histolytica, Bound To Gmp
Length = 117
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 21 AYRKIHSRLVRELEKKFSGKDVVLIATRRIVRPPKKGSAVQRPRSRTLTAVHDAMLEDVV 80
A ++I S +V E ++ F+ KD+ IA I+ PK+ A +T ++A + V+
Sbjct: 15 AQKQIPSTIVYEDDEIFAFKDINPIAPIHILVIPKQHIA----SLNEITEENEAFIGKVL 70
Query: 81 YPAEIVGKR 89
Y ++GK+
Sbjct: 71 YKVSLIGKK 79
>pdb|4FBL|A Chain A, Lips And Lipt, Two Metagenome-Derived Lipolytic Enzymes
Increase The Diversity Of Known Lipase And Esterase
Families
pdb|4FBL|B Chain B, Lips And Lipt, Two Metagenome-Derived Lipolytic Enzymes
Increase The Diversity Of Known Lipase And Esterase
Families
pdb|4FBL|C Chain C, Lips And Lipt, Two Metagenome-Derived Lipolytic Enzymes
Increase The Diversity Of Known Lipase And Esterase
Families
pdb|4FBL|D Chain D, Lips And Lipt, Two Metagenome-Derived Lipolytic Enzymes
Increase The Diversity Of Known Lipase And Esterase
Families
Length = 281
Score = 26.6 bits (57), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 47 TRRIVRPPKKGSAVQRPRSRTLTAVHDAMLEDV--VYPAEIVGKRV 90
+R PP+ G A QRPR R+ + + L+ + P VG R+
Sbjct: 7 SRNCRNPPRSGDAQQRPRERSGSGMSTTPLQVLPGAEPLYSVGSRI 52
>pdb|4FBM|A Chain A, Lips And Lipt, Two Metagenome-Derived Lipolytic Enzymes
Increase The Diversity Of Known Lipase And Esterase
Families
pdb|4FBM|B Chain B, Lips And Lipt, Two Metagenome-Derived Lipolytic Enzymes
Increase The Diversity Of Known Lipase And Esterase
Families
Length = 293
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 47 TRRIVRPPKKGSAVQRPRSRTLTAVHDAMLEDV--VYPAEIVGKRV 90
+R PP+ G A QRPR R+ + + L+ + P VG R+
Sbjct: 5 SRNCRNPPRSGDAQQRPRERSGSGMSTTPLQVLPGAEPLYSVGSRI 50
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 0.139 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,079,670
Number of Sequences: 62578
Number of extensions: 155175
Number of successful extensions: 319
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 310
Number of HSP's gapped (non-prelim): 9
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
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)