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= 030276
(180 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|S Chain S, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 178
Score = 335 bits (860), Expect = 6e-93, Method: Compositional matrix adjust.
Identities = 159/178 (89%), Positives = 167/178 (93%)
Query: 3 MVTFRFHQYQVVGRALPTETDEHPKIYRMKLWATNEVRAKSKFWYYLRKLKKVKKSNGQV 62
M FRFHQYQVVGR LPT TDEHPKIYRMKLWATNEVRAKSKFWY+LRKLKKVKKSNGQ+
Sbjct: 1 MGAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQI 60
Query: 63 LAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYNEMASRHRVRS 122
LAINEIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMY EMASRHRVR
Sbjct: 61 LAINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRF 120
Query: 123 PCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPTRKLRTTYKASRPNLFM 180
PCIQIIKTAT+ KLCKR++TKQFH S IKFPLV+RKVRPPTRKL+TT+KASRPNLFM
Sbjct: 121 PCIQIIKTATVHFKLCKRDNTKQFHKSDIKFPLVYRKVRPPTRKLKTTFKASRPNLFM 178
>pdb|3IZS|S Chain S, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
Length = 167
Score = 314 bits (805), Expect = 1e-86, Method: Compositional matrix adjust.
Identities = 149/167 (89%), Positives = 156/167 (93%)
Query: 3 MVTFRFHQYQVVGRALPTETDEHPKIYRMKLWATNEVRAKSKFWYYLRKLKKVKKSNGQV 62
M FRFHQYQVVGR LPT TDEHPKIYRMKLWATNEVRAKSKFWY+LRKLKKVKKSNGQ+
Sbjct: 1 MGAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQI 60
Query: 63 LAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYNEMASRHRVRS 122
LAINEIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMY EMASRHRVR
Sbjct: 61 LAINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRF 120
Query: 123 PCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPTRKLRT 169
PCIQIIKTAT+ KLCKR++TKQFH S IKFPLV+RKVRPPTRKL+T
Sbjct: 121 PCIQIIKTATVHFKLCKRDNTKQFHKSDIKFPLVYRKVRPPTRKLKT 167
>pdb|4A18|X Chain X, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|X Chain X, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|X Chain X, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|X Chain X, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 189
Score = 182 bits (463), Expect = 8e-47, Method: Compositional matrix adjust.
Identities = 87/174 (50%), Positives = 118/174 (67%)
Query: 6 FRFHQYQVVGRALPTETDEHPKIYRMKLWATNEVRAKSKFWYYLRKLKKVKKSNGQVLAI 65
+ QY V LP E P+I +M+++A +EV AK+KFWY +RKL K+K+S G++L++
Sbjct: 16 MKVRQYVVSAARLPIEQGTKPEILQMRVFARDEVHAKTKFWYNMRKLNKIKRSQGRILSV 75
Query: 66 NEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYNEMASRHRVRSPCI 125
NEI+EK+ +K YGI L+YQSRT HNMYKEYRD +LNGAV Q+ +MA HR + I
Sbjct: 76 NEIYEKSLNTVKTYGIVLKYQSRTAIHNMYKEYRDVSLNGAVSQLIQDMAGNHRAQPDTI 135
Query: 126 QIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPTRKLRTTYKASRPNLF 179
QII+TAT+ K KR +T N+ +KFP+V RP +K RT YKA+RP F
Sbjct: 136 QIIRTATLEPKDIKRPATLAMRNAALKFPIVKTIHRPSEKKYRTVYKATRPTTF 189
>pdb|3U5E|S Chain S, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|S Chain S, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|S Chain S, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 172
Score = 175 bits (444), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 85/173 (49%), Positives = 121/173 (69%), Gaps = 6/173 (3%)
Query: 8 FHQYQVVGRALPTETDEHPKIYRMKLWATNEVRAKSKFWYYLRKLKKVKKSNGQVLAINE 67
F +YQV+GR LPTE+ PK++RM+++A+NEV AKS++WY+L+KL KVKK++G++++IN+
Sbjct: 4 FKEYQVIGRRLPTESVPEPKLFRMRIFASNEVIAKSRYWYFLQKLHKVKKASGEIVSINQ 63
Query: 68 IFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYNEMASRHRVRSPCIQI 127
I E +PTK+KN+G+W+RY SR+G HNMYKE RD + AVE +Y +MA+RHR R I I
Sbjct: 64 INEAHPTKVKNFGVWVRYDSRSGTHNMYKEIRDVSRVAAVETLYQDMAARHRARFRSIHI 123
Query: 128 IKTATIPAKL-CKRESTKQFHNSKIKFPLVFRKVRPPTRKLRTTYKASRPNLF 179
+K A I KR+ KQF +KFPL R +K T+ RP+ F
Sbjct: 124 LKVAEIEKTADVKRQYVKQFLTKDLKFPLPHR-----VQKSTKTFSYKRPSTF 171
>pdb|3ZF7|S Chain S, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 179
Score = 121 bits (303), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 66/170 (38%), Positives = 100/170 (58%), Gaps = 3/170 (1%)
Query: 3 MVTFRFHQYQVVGRALPTETDEHPKIYRMKLWATNEVRAKSKFWYYLRKLKKVKKSNGQV 62
MV Y VVGR P+E + P +Y+ +++A N V AKS+FW +R+ KVK ++G V
Sbjct: 1 MVRPHLRHYCVVGRETPSEKNPQPTVYKFEVFAPNFVVAKSRFWRMMREKNKVKSTHGDV 60
Query: 63 LAINEIFEKNPTKIKNYGIWLRYQS-RTGYHNMYKEYRDTTLNGAVEQMYNEMASRHRVR 121
L+ ++ + +NY + + Y S R GY +M KE+RD GAV Q YN++ASRHR R
Sbjct: 61 LSC-KVVKDRKLAARNYSVDIAYYSQRCGYTHMVKEFRDVCKAGAVSQAYNDLASRHRAR 119
Query: 122 SPCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPTRKLRTTY 171
I+++ +IP +R + QFH + FPL+ R+V+ P RK R +
Sbjct: 120 YHNIEVLGVKSIPNHEVRRLNVAQFHPHNLSFPLLQRRVKAP-RKDRVIF 168
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
0.323 0.134 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,087,946
Number of Sequences: 62578
Number of extensions: 180706
Number of successful extensions: 424
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 417
Number of HSP's gapped (non-prelim): 8
length of query: 180
length of database: 14,973,337
effective HSP length: 93
effective length of query: 87
effective length of database: 9,153,583
effective search space: 796361721
effective search space used: 796361721
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 48 (23.1 bits)