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= 032387
(142 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 = 146 bits (368), Expect = 4e-36, Method: Compositional matrix adjust.
Identities = 74/139 (53%), Positives = 98/139 (70%), Gaps = 2/139 (1%)
Query: 2 QIDVPGNRKAVVIHIPYRLRKAYRKIHTKLVRELEKKFSGKDVILIATRRIL-RPPKKGS 60
+IDV G +KA+ I +P + K+ TKL RELEKKF + VI +A RRIL +P +
Sbjct: 48 EIDVAGGKKALAIFVPVPSLAGFHKVQTKLTRELEKKFQDRHVIFLAERRILPKPSRTSR 107
Query: 61 AVQ-RPRSRTLTSVHEAMLEDVVLPAEIVGKRIRYRLDGSKIMKVFLDPKERNNTEYKLD 119
VQ RPRSRTLT+VH+ +LED+V P EIVGKR+RY + G+KI KV LD K+ +YKL+
Sbjct: 108 QVQKRPRSRTLTAVHDKILEDLVFPTEIVGKRVRYLVGGNKIQKVLLDSKDVQQIDYKLE 167
Query: 120 TFAAVYRKLSGKDVVFDFP 138
+F AVY KL+GK +VF+ P
Sbjct: 168 SFQAVYNKLTGKQIVFEIP 186
>pdb|3ZEY|4 Chain 4, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 202
Score = 103 bits (258), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 56/128 (43%), Positives = 79/128 (61%), Gaps = 1/128 (0%)
Query: 11 AVVIHIPYRLRKAYRKIHTKLVRELEKKFSGKDVILIATRRILRPPKKGSAVQR-PRSRT 69
A++I P R RKI L ELEK+F G V+L+A R+I + P +Q+ RSRT
Sbjct: 63 AMIILYPLRFIMLVRKIQRTLTAELEKRFPGNIVVLVAQRKITKRPNDVYKLQQVQRSRT 122
Query: 70 LTSVHEAMLEDVVLPAEIVGKRIRYRLDGSKIMKVFLDPKERNNTEYKLDTFAAVYRKLS 129
+V E +L D++ P ++VG+R RYR DGSK+MKVFLD ++R E +L A VY+ L+
Sbjct: 123 SVAVFENILNDLIYPCDVVGRRWRYRTDGSKLMKVFLDARDRKRVESRLPLLAHVYKLLT 182
Query: 130 GKDVVFDF 137
+ V F 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 = 79.7 bits (195), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 47/131 (35%), Positives = 82/131 (62%), Gaps = 4/131 (3%)
Query: 9 RKAVVIHIPYRLRKAYRKIHTKLVRELEKKFSGKDVILIATRRILRPP--KKGSAVQRPR 66
+ AV+I++ ++ + KL+ ELEKK K ++ +R + K+ + QRPR
Sbjct: 58 KSAVLIYVHFQSYRVLLSAARKLIIELEKKL--KQIVFFTAQRKIESKWVKEHKSQQRPR 115
Query: 67 SRTLTSVHEAMLEDVVLPAEIVGKRIRYRLDGSKIMKVFLDPKERNNTEYKLDTFAAVYR 126
SR LT V++A+L+D++LP+ ++GKRIR RLDG+ ++ LD +R+ E KLD +Y+
Sbjct: 116 SRCLTYVYDALLDDLLLPSTLIGKRIRARLDGTSFYRIQLDQNDRDFLEEKLDAITHIYK 175
Query: 127 KLSGKDVVFDF 137
++ ++V F+F
Sbjct: 176 TVTTREVTFEF 186
>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 = 29.3 bits (64), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 33 RELEKKFSGKDVILIATRRILRPPKKGSAVQRPRSRTLTSVHEA 76
RE +K + KD+ A R ++ P KK S V PR R +T+ HEA
Sbjct: 262 REGRRKITMKDLEEAADRVMMLPAKK-SLVLSPRDRRITAYHEA 304
>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 = 29.3 bits (64), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 33 RELEKKFSGKDVILIATRRILRPPKKGSAVQRPRSRTLTSVHEA 76
RE +K + KD+ A R ++ P KK S V PR R +T+ HEA
Sbjct: 253 REGRRKITMKDLEEAADRVMMLPAKK-SLVLSPRDRRITAYHEA 295
>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 = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 49 TRRILRPPKKGSAVQRPRSRTLTSVHEAMLEDVVLPAE----IVGKRI 92
+R PP+ G A QRPR R+ + + L+ VLP VG RI
Sbjct: 7 SRNCRNPPRSGDAQQRPRERSGSGMSTTPLQ--VLPGAEPLYSVGSRI 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 = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 49 TRRILRPPKKGSAVQRPRSRTLTSVHEAMLEDVVLPAE----IVGKRI 92
+R PP+ G A QRPR R+ + + L+ VLP VG RI
Sbjct: 5 SRNCRNPPRSGDAQQRPRERSGSGMSTTPLQ--VLPGAEPLYSVGSRI 50
>pdb|2JFN|A Chain A, Crystal Structure Of Escherichia Coli Glutamate Racemase
In Complex With L-Glutamate And Activator Udp-Murnac-Ala
Length = 285
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 29 TKLVRELEKKFSGKDVILIATRRILRP 55
++V E K G+DV L A +RILRP
Sbjct: 163 AEMVELAEAKLHGEDVSLDALKRILRP 189
>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 = 26.6 bits (57), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 23 AYRKIHTKLVRELEKKFSGKDVILIATRRILRPPKKGSAVQRPRSRTLTSVHEAMLEDVV 82
A ++I + +V E ++ F+ KD+ IA IL PK+ A +T +EA + V+
Sbjct: 15 AQKQIPSTIVYEDDEIFAFKDINPIAPIHILVIPKQHIA----SLNEITEENEAFIGKVL 70
Query: 83 LPAEIVGKR 91
++GK+
Sbjct: 71 YKVSLIGKK 79
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: 4,090,492
Number of Sequences: 62578
Number of extensions: 152977
Number of successful extensions: 341
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 14
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
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)