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= 035537
(178 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 (858), Expect = 1e-92, Method: Compositional matrix adjust.
Identities = 158/178 (88%), Positives = 168/178 (94%)
Query: 1 MVTFRFHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQM 60
M FRFHQYQVVGR LPT +DEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQ+
Sbjct: 1 MGAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQI 60
Query: 61 LAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRS 120
LAINEIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR
Sbjct: 61 LAINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRF 120
Query: 121 PCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPSRKLRTTYKATRPNLFM 178
PCIQIIKTAT+ KLCKR++TKQFH S IKFPLV+RKVRPP+RKL+TT+KA+RPNLFM
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 = 315 bits (806), Expect = 1e-86, Method: Compositional matrix adjust.
Identities = 149/167 (89%), Positives = 157/167 (94%)
Query: 1 MVTFRFHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQM 60
M FRFHQYQVVGR LPT +DEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQ+
Sbjct: 1 MGAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQI 60
Query: 61 LAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRS 120
LAINEIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR
Sbjct: 61 LAINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRF 120
Query: 121 PCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPSRKLRT 167
PCIQIIKTAT+ KLCKR++TKQFH S IKFPLV+RKVRPP+RKL+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 = 184 bits (466), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 88/174 (50%), Positives = 118/174 (67%)
Query: 4 FRFHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAI 63
+ QY V LP E P+I +M+++A +EV AK+KFWY +RKL K+K+S G++L++
Sbjct: 16 MKVRQYVVSAARLPIEQGTKPEILQMRVFARDEVHAKTKFWYNMRKLNKIKRSQGRILSV 75
Query: 64 NEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCI 123
NEI+EK+ +K YGI L+YQSRT HNMYKEYRD +LNGAV Q+ +MA HR + I
Sbjct: 76 NEIYEKSLNTVKTYGIVLKYQSRTAIHNMYKEYRDVSLNGAVSQLIQDMAGNHRAQPDTI 135
Query: 124 QIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPSRKLRTTYKATRPNLF 177
QII+TAT+ K KR +T N+ +KFP+V RP +K RT YKATRP 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 = 176 bits (446), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 87/173 (50%), Positives = 121/173 (69%), Gaps = 6/173 (3%)
Query: 6 FHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAINE 65
F +YQV+GR LPTES PK++RM+++A+NEV AKS++WYFL+KL KVKK++G++++IN+
Sbjct: 4 FKEYQVIGRRLPTESVPEPKLFRMRIFASNEVIAKSRYWYFLQKLHKVKKASGEIVSINQ 63
Query: 66 IFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQI 125
I E +PTK+KN+G+W+RY SR+G HNMYKE RD + AVE +Y +MA+RHR R I I
Sbjct: 64 INEAHPTKVKNFGVWVRYDSRSGTHNMYKEIRDVSRVAAVETLYQDMAARHRARFRSIHI 123
Query: 126 IKTATIPAKL-CKRESTKQFHNSKIKFPLVFRKVRPPSRKLRTTYKATRPNLF 177
+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 = 118 bits (296), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 64/170 (37%), Positives = 99/170 (58%), Gaps = 3/170 (1%)
Query: 1 MVTFRFHQYQVVGRALPTESDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQM 60
MV Y VVGR P+E + P +Y+ +++A N V AKS+FW +R+ KVK ++G +
Sbjct: 1 MVRPHLRHYCVVGRETPSEKNPQPTVYKFEVFAPNFVVAKSRFWRMMREKNKVKSTHGDV 60
Query: 61 LAINEIFEKNPTKIKNYGIWLRYQS-RTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR 119
L+ ++ + +NY + + Y S R GY +M KE+RD GAV Q Y ++ASRHR R
Sbjct: 61 LSC-KVVKDRKLAARNYSVDIAYYSQRCGYTHMVKEFRDVCKAGAVSQAYNDLASRHRAR 119
Query: 120 SPCIQIIKTATIPAKLCKRESTKQFHNSKIKFPLVFRKVRPPSRKLRTTY 169
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 0.133 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,999,944
Number of Sequences: 62578
Number of extensions: 175982
Number of successful extensions: 378
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 371
Number of HSP's gapped (non-prelim): 9
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
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)