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= 028910
(202 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 = 334 bits (857), Expect = 2e-92, Method: Compositional matrix adjust.
Identities = 159/178 (89%), Positives = 167/178 (93%)
Query: 25 MVTFRFHQYQVVGRALPTEKDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQM 84
M FRFHQYQVVGR LPT DEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQ+
Sbjct: 1 MGAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQI 60
Query: 85 LAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRS 144
LAINEIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR
Sbjct: 61 LAINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRF 120
Query: 145 PCIQIIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPPTRKLKTTYKASRPNLFM 202
PCIQII+TAT+ KLCKR++TKQFH S IKFPLV++KVRPPTRKLKTT+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 = 313 bits (803), Expect = 3e-86, Method: Compositional matrix adjust.
Identities = 149/167 (89%), Positives = 156/167 (93%)
Query: 25 MVTFRFHQYQVVGRALPTEKDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQM 84
M FRFHQYQVVGR LPT DEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQ+
Sbjct: 1 MGAFRFHQYQVVGRGLPTPTDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQI 60
Query: 85 LAINEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRS 144
LAINEIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR
Sbjct: 61 LAINEIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRF 120
Query: 145 PCIQIIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPPTRKLKT 191
PCIQII+TAT+ KLCKR++TKQFH S IKFPLV++KVRPPTRKLKT
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 = 9e-47, Method: Compositional matrix adjust.
Identities = 87/174 (50%), Positives = 119/174 (68%)
Query: 28 FRFHQYQVVGRALPTEKDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAI 87
+ QY V LP E+ P+I +M+++A +EV AK+KFWY +RKL K+K+S G++L++
Sbjct: 16 MKVRQYVVSAARLPIEQGTKPEILQMRVFARDEVHAKTKFWYNMRKLNKIKRSQGRILSV 75
Query: 88 NEIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCI 147
NEI+EK+ +K YGI L+YQSRT HNMYKEYRD +LNGAV Q+ +MA HR + I
Sbjct: 76 NEIYEKSLNTVKTYGIVLKYQSRTAIHNMYKEYRDVSLNGAVSQLIQDMAGNHRAQPDTI 135
Query: 148 QIIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPPTRKLKTTYKASRPNLF 201
QIIRTAT+ K KR +T N+ +KFP+V RP +K +T 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 = 173 bits (438), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 86/175 (49%), Positives = 121/175 (69%), Gaps = 10/175 (5%)
Query: 30 FHQYQVVGRALPTEKDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQMLAINE 89
F +YQV+GR LPTE PK++RM+++A+NEV AKS++WYFL+KL KVKK++G++++IN+
Sbjct: 4 FKEYQVIGRRLPTESVPEPKLFRMRIFASNEVIAKSRYWYFLQKLHKVKKASGEIVSINQ 63
Query: 90 IFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQI 149
I E +PTK+KN+G+W+RY SR+G HNMYKE RD + AVE +Y +MA+RHR R I I
Sbjct: 64 INEAHPTKVKNFGVWVRYDSRSGTHNMYKEIRDVSRVAAVETLYQDMAARHRARFRSIHI 123
Query: 150 IRTATIPAKL-CKRESTKQFHNSKIKFPLVFKKVRPPTRKLKT--TYKASRPNLF 201
++ A I KR+ KQF +KFPL P R K+ T+ RP+ F
Sbjct: 124 LKVAEIEKTADVKRQYVKQFLTKDLKFPL-------PHRVQKSTKTFSYKRPSTF 171
>pdb|3ZF7|S Chain S, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 179
Score = 117 bits (294), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 61/162 (37%), Positives = 96/162 (59%), Gaps = 2/162 (1%)
Query: 25 MVTFRFHQYQVVGRALPTEKDEHPKIYRMKLWATNEVRAKSKFWYFLRKLKKVKKSNGQM 84
MV Y VVGR P+EK+ P +Y+ +++A N V AKS+FW +R+ KVK ++G +
Sbjct: 1 MVRPHLRHYCVVGRETPSEKNPQPTVYKFEVFAPNFVVAKSRFWRMMREKNKVKSTHGDV 60
Query: 85 LAINEIFEKNPTKIKNYGIWLRYQS-RTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR 143
L+ ++ + +NY + + Y S R GY +M KE+RD GAV Q Y ++ASRHR R
Sbjct: 61 LSC-KVVKDRKLAARNYSVDIAYYSQRCGYTHMVKEFRDVCKAGAVSQAYNDLASRHRAR 119
Query: 144 SPCIQIIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPP 185
I+++ +IP +R + QFH + FPL+ ++V+ P
Sbjct: 120 YHNIEVLGVKSIPNHEVRRLNVAQFHPHNLSFPLLQRRVKAP 161
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 0.133 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,808,578
Number of Sequences: 62578
Number of extensions: 212804
Number of successful extensions: 464
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: 457
Number of HSP's gapped (non-prelim): 9
length of query: 202
length of database: 14,973,337
effective HSP length: 94
effective length of query: 108
effective length of database: 9,091,005
effective search space: 981828540
effective search space used: 981828540
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: 49 (23.5 bits)