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= 033412
(120 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|II Chain i, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 119
Score = 174 bits (441), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 87/95 (91%), Positives = 88/95 (92%)
Query: 1 MVQRLTYRKRHSYATKSNQHRVVKTPGGKLVYQSTKKRASGPKCPVTGKRIQGIPHLRPA 60
MVQRLTYRKRHSYATKSNQ RVVKTPGGKLVYQ TKKRASGPKCPVTGK+IQGIPHLRP
Sbjct: 1 MVQRLTYRKRHSYATKSNQTRVVKTPGGKLVYQYTKKRASGPKCPVTGKKIQGIPHLRPT 60
Query: 61 EYKRSRLPRNRRTVNRAYGGVLSGAAVRERIIRAF 95
EYKR RL RNRRTVNR YGGVLSG AVRERIIRAF
Sbjct: 61 EYKRPRLSRNRRTVNRPYGGVLSGPAVRERIIRAF 95
>pdb|3IZS|II Chain i, Localization Of The Large Subunit Ribosomal Proteins
Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
Length = 118
Score = 89.7 bits (221), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 48/95 (50%), Positives = 64/95 (67%), Gaps = 2/95 (2%)
Query: 1 MVQRLTYRKRHSYATKSNQHRVVKTPGGKLVYQSTKKRASGPKCPVTGKRIQGIPHLRPA 60
M QR+T+R+R+ Y T+SN+ +VVKTPGG L Q KK A+ PKC G +QGI LRP
Sbjct: 1 MAQRVTFRRRNPYNTRSNKIKVVKTPGGILRAQHVKKLATRPKCGDCGSALQGISTLRPR 60
Query: 61 EYKRSRLPRNRRTVNRAYGGVLSGAAVRERIIRAF 95
+Y + + + +TV+RAYGG V+ERIIRAF
Sbjct: 61 QY--ATVSKTHKTVSRAYGGSRCANCVKERIIRAF 93
>pdb|3U5E|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|GG Chain g, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|GG Chain g, Cryo-Em Structure Of The 60s Ribosomal Subunit In
Complex With Arx1 And Rei1
Length = 121
Score = 89.4 bits (220), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 48/95 (50%), Positives = 64/95 (67%), Gaps = 2/95 (2%)
Query: 1 MVQRLTYRKRHSYATKSNQHRVVKTPGGKLVYQSTKKRASGPKCPVTGKRIQGIPHLRPA 60
M QR+T+R+R+ Y T+SN+ +VVKTPGG L Q KK A+ PKC G +QGI LRP
Sbjct: 1 MAQRVTFRRRNPYNTRSNKIKVVKTPGGILRAQHVKKLATRPKCGDCGSALQGISTLRPR 60
Query: 61 EYKRSRLPRNRRTVNRAYGGVLSGAAVRERIIRAF 95
+Y + + + +TV+RAYGG V+ERIIRAF
Sbjct: 61 QY--ATVSKTHKTVSRAYGGSRCANCVKERIIRAF 93
>pdb|4A18|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|L Chain L, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2.
pdb|4ADX|4 Chain 4, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 123
Score = 89.4 bits (220), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 50/97 (51%), Positives = 63/97 (64%), Gaps = 4/97 (4%)
Query: 1 MVQRLTYRKRHSYATKSNQHRVVKTPGGKLVYQSTKKRASGPKCPVTGKRI--QGIPHLR 58
M QR+TYR+R SY T+SN+ R VKTPGG+LV Q KK + KC G + GI +R
Sbjct: 1 MAQRITYRRRCSYNTRSNKVRKVKTPGGRLVAQYVKKVVNYTKCSEAGCNVALNGIAQVR 60
Query: 59 PAEYKRSRLPRNRRTVNRAYGGVLSGAAVRERIIRAF 95
PAEY + + R+ +TV+R YGG L VR RIIRAF
Sbjct: 61 PAEY--ATIARSAKTVSRVYGGELCHTCVRSRIIRAF 95
>pdb|3ZF7|JJ Chain j, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 170
Score = 76.6 bits (187), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 47/95 (49%), Positives = 65/95 (68%), Gaps = 6/95 (6%)
Query: 4 RLTYRKRHSYATKSNQHRVVKTPGGKLVYQSTKKRASGPKCP-VTG-KRIQGIPHLRPAE 61
R+ YR+R YAT+ N+ R+V+TPG +LV Q KR+ GP P V G KR+ G LR
Sbjct: 5 RVQYRRRMHYATRGNRMRLVRTPGNRLVMQKRGKRSQGPHTPWVLGHKRLAGTKALR--- 61
Query: 62 YKRSRL-PRNRRTVNRAYGGVLSGAAVRERIIRAF 95
+ ++RL PR+++T +R YGGVLS VR+RI+RAF
Sbjct: 62 HTKARLAPRHQKTTSRPYGGVLSHEQVRDRIVRAF 96
>pdb|3J21|DD Chain d, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 89
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 13 YATKSNQHRVVKTPGGKLVYQSTKKRASGPKCPVTGKRIQGIPHLRPAEYKRSRLPRNRR 72
Y ++S + + V+TPGG++V +K+ C + G+ + GIP RP E + +LP+ ++
Sbjct: 5 YRSRSWRRKYVRTPGGRVVIHFERKKPKIAHCAMCGRPLNGIPRGRPVEMR--KLPKTKK 62
Query: 73 TVNR 76
R
Sbjct: 63 RPER 66
>pdb|2R3A|A Chain A, Methyltransferase Domain Of Human Suppressor Of
Variegation 3-9 Homolog 2
Length = 300
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 18 NQHRVVKTPGGKLVYQSTKKRASGPKCP 45
N+++ +K P G +Y+ + GP CP
Sbjct: 103 NKNQQIKIPPGTPIYECNSRCQCGPDCP 130
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
0.320 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,675,808
Number of Sequences: 62578
Number of extensions: 89827
Number of successful extensions: 162
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 151
Number of HSP's gapped (non-prelim): 7
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)