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= 033222
(124 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 = 214 bits (546), Expect = 7e-57, Method: Compositional matrix adjust.
Identities = 101/114 (88%), Positives = 108/114 (94%)
Query: 11 EIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQ 70
EIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR PCIQ
Sbjct: 65 EIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRFPCIQ 124
Query: 71 IIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPPTRKLKTTYKASRPNLFM 124
II+TAT+ KLCKR++TKQFH S IKFPLV++KVRPPTRKLKTT+KASRPNLFM
Sbjct: 125 IIKTATVHFKLCKRDNTKQFHKSDIKFPLVYRKVRPPTRKLKTTFKASRPNLFM 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 = 194 bits (492), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 91/103 (88%), Positives = 97/103 (94%)
Query: 11 EIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQ 70
EIFEKNPT IKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVR PCIQ
Sbjct: 65 EIFEKNPTTIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRFPCIQ 124
Query: 71 IIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPPTRKLKT 113
II+TAT+ KLCKR++TKQFH S IKFPLV++KVRPPTRKLKT
Sbjct: 125 IIKTATVHFKLCKRDNTKQFHKSDIKFPLVYRKVRPPTRKLKT 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 = 123 bits (309), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 60/113 (53%), Positives = 76/113 (67%)
Query: 11 EIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQ 70
EI+EK+ +K YGI L+YQSRT HNMYKEYRD +LNGAV Q+ +MA HR + IQ
Sbjct: 77 EIYEKSLNTVKTYGIVLKYQSRTAIHNMYKEYRDVSLNGAVSQLIQDMAGNHRAQPDTIQ 136
Query: 71 IIRTATIPAKLCKRESTKQFHNSKIKFPLVFKKVRPPTRKLKTTYKASRPNLF 123
IIRTAT+ K KR +T N+ +KFP+V RP +K +T YKA+RP F
Sbjct: 137 IIRTATLEPKDIKRPATLAMRNAALKFPIVKTIHRPSEKKYRTVYKATRPTTF 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 = 97.1 bits (240), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 52/116 (44%), Positives = 70/116 (60%), Gaps = 10/116 (8%)
Query: 11 EIFEKNPTKIKNYGIWLRYQSRTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQ 70
+I E +PTK+KN+G+W+RY SR+G HNMYKE RD + AVE +Y +MA+RHR R I
Sbjct: 63 QINEAHPTKVKNFGVWVRYDSRSGTHNMYKEIRDVSRVAAVETLYQDMAARHRARFRSIH 122
Query: 71 IIRTATIPAKL-CKRESTKQFHNSKIKFPLVFKKVRPPTRKLKT--TYKASRPNLF 123
I++ A I KR+ KQF +KFPL P R K+ T+ RP+ F
Sbjct: 123 ILKVAEIEKTADVKRQYVKQFLTKDLKFPL-------PHRVQKSTKTFSYKRPSTF 171
>pdb|3ZF7|S Chain S, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 179
Score = 72.0 bits (175), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 35/88 (39%), Positives = 53/88 (60%), Gaps = 1/88 (1%)
Query: 21 KNYGIWLRYQS-RTGYHNMYKEYRDTTLNGAVEQMYTEMASRHRVRSPCIQIIRTATIPA 79
+NY + + Y S R GY +M KE+RD GAV Q Y ++ASRHR R I+++ +IP
Sbjct: 74 RNYSVDIAYYSQRCGYTHMVKEFRDVCKAGAVSQAYNDLASRHRARYHNIEVLGVKSIPN 133
Query: 80 KLCKRESTKQFHNSKIKFPLVFKKVRPP 107
+R + QFH + FPL+ ++V+ P
Sbjct: 134 HEVRRLNVAQFHPHNLSFPLLQRRVKAP 161
>pdb|2BP5|M Chain M, Mu2 Adaptin Subunit (Ap50) Of Ap2 Adaptor (Second Domain),
Complexed With Non-Canonical Internalization Peptide
Vedyeqglsg
pdb|2VGL|M Chain M, Ap2 Clathrin Adaptor Core
pdb|2JKR|M Chain M, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKR|U Chain U, Ap2 Clathrin Adaptor Core With Dileucine Peptide Rm(
Phosphos)qikrllse
pdb|2JKT|M Chain M, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
pdb|2JKT|U Chain U, Ap2 Clathrin Adaptor Core With Cd4 Dileucine Peptide Rm(
Phosphos)eikrllse Q To E Mutant
Length = 435
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 42 YRDTTLNGAVEQMYTEMA-SRHRVRSPCIQIIRTATIPAK---LCKRESTKQFHNSKIKF 97
YRD AV+ + +R +VRSP I RT+ K + TKQ N+ + F
Sbjct: 20 YRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVF 79
Query: 98 PLVFK 102
++K
Sbjct: 80 EFLYK 84
>pdb|2XA7|M Chain M, Ap2 Clathrin Adaptor Core In Active Complex With Cargo
Peptides
Length = 446
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 42 YRDTTLNGAVEQMYTEMA-SRHRVRSPCIQIIRTATIPAK---LCKRESTKQFHNSKIKF 97
YRD AV+ + +R +VRSP I RT+ K + TKQ N+ + F
Sbjct: 20 YRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVF 79
Query: 98 PLVFK 102
++K
Sbjct: 80 EFLYK 84
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 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,536,238
Number of Sequences: 62578
Number of extensions: 116776
Number of successful extensions: 301
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: 295
Number of HSP's gapped (non-prelim): 7
length of query: 124
length of database: 14,973,337
effective HSP length: 85
effective length of query: 39
effective length of database: 9,654,207
effective search space: 376514073
effective search space used: 376514073
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)