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= psy14653
(191 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EEL|A Chain A, Solution Structure Of The Cide-N Domain Of Human Cell
Death Activator Cide-A
Length = 91
Score = 69.3 bits (168), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 30/76 (39%), Positives = 49/76 (64%)
Query: 7 RPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLE 66
RP+++ ++ R + GV+ASSL+E+ K D L + + ++LE DGT +D E++F TL
Sbjct: 10 RPFRVSNHDRSSRRGVMASSLQELISKTLDALVIATGLVTLVLEEDGTVVDTEEFFQTLG 69
Query: 67 NNTTLMVLFDNEKWTP 82
+NT M+L +KW P
Sbjct: 70 DNTHFMILEKGQKWMP 85
>pdb|1D4B|A Chain A, Cide-N Domain Of Human Cide-B
Length = 122
Score = 67.0 bits (162), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 53/82 (64%), Gaps = 1/82 (1%)
Query: 6 QRPYKIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTL 65
QRP+++ D+KR + G+ A++ +E+ KA + L + + ++LE DGT +D ED+F L
Sbjct: 35 QRPFRVCDHKRTIRKGLTAATRQELLAKALETLL-LNGVLTLVLEEDGTAVDSEDFFQLL 93
Query: 66 ENNTTLMVLFDNEKWTPVKQFV 87
E++T LMVL + W+P + V
Sbjct: 94 EDDTCLMVLQSGQSWSPTRSGV 115
>pdb|1F2R|I Chain I, Nmr Structure Of The Heterodimeric Complex Between Cad
Domains Of Cad And Icad
Length = 100
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 33/80 (41%), Positives = 47/80 (58%), Gaps = 5/80 (6%)
Query: 7 RPYKIIDYKRER---KVGVVASSLEEIKRKAQDKLS--NTSDNIKILLESDGTEIDEEDY 61
RP K +R + GV ASSLEE++ KA + L+ + I ++L DGT +D++DY
Sbjct: 16 RPLKPCLLRRNHSRDQHGVAASSLEELRSKACELLAIDKSLTPITLVLAEDGTIVDDDDY 75
Query: 62 FCTLENNTTLMVLFDNEKWT 81
F L +NT + L NEKWT
Sbjct: 76 FLCLPSNTKFVALACNEKWT 95
>pdb|1IBX|B Chain B, Nmr Structure Of Dff40 And Dff45 N-Terminal Domain Complex
Length = 145
Score = 53.5 bits (127), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/70 (41%), Positives = 44/70 (62%), Gaps = 3/70 (4%)
Query: 13 DYKRERKVGVVASSLEEIKRKAQDKLS--NTSDNIKILLESDGTEIDEEDYFCTLENNTT 70
+Y RE+ GV AS LE+++ KA D L+ + + ++L DGT +D++DYF L +NT
Sbjct: 71 NYSREQH-GVAASCLEDLRSKACDILAIDKSLTPVTLVLAEDGTIVDDDDYFLCLPSNTK 129
Query: 71 LMVLFDNEKW 80
+ L NEKW
Sbjct: 130 FVALASNEKW 139
>pdb|1IBX|A Chain A, Nmr Structure Of Dff40 And Dff45 N-Terminal Domain
Complex
Length = 86
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 1/71 (1%)
Query: 10 KIIDYKRERKVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLENNT 69
K+ + RK GV S +E+ RK + ++ L DGTE+ EDYF ++ +N
Sbjct: 9 KLRALRSPRKFGVAGRSCQEVLRKGCLRFQLPERGSRLCLYEDGTELT-EDYFPSVPDNA 67
Query: 70 TLMVLFDNEKW 80
L++L + W
Sbjct: 68 ELVLLTLGQAW 78
>pdb|1C9F|A Chain A, Nmr Structure Of The Cad Domain Of Caspase-Activated
Dnase
Length = 90
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 19 KVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLENNTTLMVLFDNE 78
K GV A S +E+ RK + ++ L DGTE+ +D F L N+ L++L E
Sbjct: 24 KFGVAARSCQELLRKGCVRFQLPMPGSRLCLYEDGTEVT-DDCFPGLPNDAELLLLTAGE 82
Query: 79 KW 80
W
Sbjct: 83 TW 84
>pdb|1F2R|C Chain C, Nmr Structure Of The Heterodimeric Complex Between Cad
Domains Of Cad And Icad
Length = 87
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 1/62 (1%)
Query: 19 KVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLENNTTLMVLFDNE 78
K GV A S +E+ RK + ++ L DGTE+ +D F L N+ L++L E
Sbjct: 21 KFGVAARSCQELLRKGCVRFQLPMPGSRLCLYEDGTEVT-DDCFPGLPNDAELLLLTAGE 79
Query: 79 KW 80
W
Sbjct: 80 TW 81
>pdb|1V0D|A Chain A, Crystal Structure Of Caspase-Activated Dnase (Cad)
Length = 329
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 5/85 (5%)
Query: 19 KVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDEEDYFCTLENNTTLMVLFDNE 78
K GV A S +E+ RK + ++ L DGTE+ +D F L N+ L++L E
Sbjct: 21 KFGVAARSCQELLRKGCVRFQLPMPGSRLCLYEDGTEVT-DDCFPGLPNDAELLLLTAGE 79
Query: 79 KW----TPVKQFVDAVDGSHHPLTQ 99
W + + +F+ + H + Q
Sbjct: 80 TWHGYVSDITRFLSVFNEPHAGVIQ 104
>pdb|2VCE|A Chain A, Characterization And Engineering Of The Bifunctional N-
And O-glucosyltransferase Involved In Xenobiotic
Metabolism In Plants
pdb|2VCH|A Chain A, Characterization And Engineering Of The Bifunctional N-
And O-Glucosyltransferase Involved In Xenobiotic
Metabolism In Plants
pdb|2VG8|A Chain A, Characterization And Engineering Of The Bifunctional N-
And O-Glucosyltransferase Involved In Xenobiotic
Metabolism In Plants
Length = 480
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 23/41 (56%)
Query: 140 LNQVKEASCRFLSDKRNAQEALDLLKLYHKSYINNTNSNND 180
+ ++KEA+CR L D + +AL L+ L K++ N +
Sbjct: 439 MKELKEAACRVLKDDGTSTKALSLVALKWKAHKKELEQNGN 479
>pdb|3PIE|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant
pdb|3PIE|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant
pdb|3PIE|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant
pdb|3PIE|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant
pdb|3PIF|A Chain A, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant In Complex With Manganese
pdb|3PIF|B Chain B, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant In Complex With Manganese
pdb|3PIF|C Chain C, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant In Complex With Manganese
pdb|3PIF|D Chain D, Crystal Structure Of The 5'->3' Exoribonuclease Xrn1, E178q
Mutant In Complex With Manganese
Length = 1155
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 4/43 (9%)
Query: 36 DKLSNTSDNIKILLESDGTEIDEEDYFCTLENNTTLMVLFDNE 78
D++ D+ K+ L S GT + + ++ N ++ VLFDNE
Sbjct: 1070 DRVMYIQDSGKVPLHSKGTVVG----YTSIGKNVSIQVLFDNE 1108
>pdb|1PIE|A Chain A, Crystal Structure Of Lactococcus Lactis Galactokinase
Complexed With Galactose
Length = 419
Score = 27.7 bits (60), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 25/40 (62%)
Query: 19 KVGVVASSLEEIKRKAQDKLSNTSDNIKILLESDGTEIDE 58
K+GV+ L+E+++K + SN + ++L+ G EID+
Sbjct: 101 KLGVIEFDLDEVEKKDGELWSNYVKGMIVMLKGAGYEIDK 140
>pdb|3PYO|C Chain C, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYR|C Chain C, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 50s Subunit Of The Second 70s
Ribosome.
pdb|3PYT|C Chain C, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The First 70s Ribosome.
pdb|3PYV|C Chain C, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 50s Subunit Of The Second 70s Ribosome
Length = 271
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 12/93 (12%)
Query: 6 QRPYKIIDYKRERKVGV---VASSLEEIKRKAQDKLSNTSDNIK-ILLESDGTEIDEEDY 61
+R Y+IID+KR KVG+ VA+ + R A+ L + D K ++ DG ++ ++
Sbjct: 58 KRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRYIIAPDGLQVGQQVV 117
Query: 62 F---CTLENNTTLMVLFDNEKWTPVKQFVDAVD 91
++ L + F PV V AV+
Sbjct: 118 AGPDAPIQVGNALPLRF-----IPVGTVVHAVE 145
>pdb|3FIN|D Chain D, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit.
pdb|3TVE|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVH|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
Length = 272
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 12/93 (12%)
Query: 6 QRPYKIIDYKRERKVGV---VASSLEEIKRKAQDKLSNTSDNIK-ILLESDGTEIDEEDY 61
+R Y+IID+KR KVG+ VA+ + R A+ L + D K ++ DG ++ ++
Sbjct: 58 KRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRYIIAPDGLQVGQQVV 117
Query: 62 F---CTLENNTTLMVLFDNEKWTPVKQFVDAVD 91
++ L + F PV V AV+
Sbjct: 118 AGPDAPIQVGNALPLRF-----IPVGTVVHAVE 145
>pdb|2J01|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
This File Contains The 50s Subunit From Molecule I.
pdb|2J03|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
This File Contains The 50s Subunit From Molecule Ii.
pdb|2HGJ|D Chain D, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgi.
pdb|2HGQ|D Chain D, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgq Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgp.
pdb|2HGU|D Chain D, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|1VSA|B Chain B, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|2V47|D Chain D, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 2 Of 4). This File Contains The 50s
Subunit For Molecule 1.
pdb|2V49|D Chain D, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 4 Of 4). This File Contains The 50s
Subunit Of Molecule 2.
pdb|1VSP|B Chain B, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3D5B|D Chain D, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5D|D Chain D, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 50s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1F|D Chain D, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes As Described In
Remark 400.
pdb|3F1H|D Chain D, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes As
Described In Remark 400.
pdb|2WDI|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule I.
pdb|2WDJ|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WDL|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule I.
pdb|2WDN|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule Ii.
pdb|2WH2|D Chain D, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH4|D Chain D, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|3HUX|D Chain D, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|D Chain D, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WRJ|D Chain D, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of 4).
pdb|2WRL|D Chain D, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|2WRO|D Chain D, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 2 Of 4).
pdb|2WRR|D Chain D, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 4 Of 4).
pdb|3KIR|D Chain D, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|D Chain D, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|D Chain D, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|D Chain D, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|D Chain D, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule I
pdb|3KNK|D Chain D, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|D Chain D, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|D Chain D, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|3I8F|D Chain D, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8f Contains 50s Ribosomal Subunit. The 30s
Ribosoma Can Be Found In Pdb Entry 3i8g. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8I|D Chain D, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9C|D Chain D, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9c Contains 50s Ribosomal Subunit Of Molecule B.
The 30s Subunit Can Be Found In Pdb Entry 3i9b. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9E|D Chain D, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9e Contains 50s Ribosomal Subunit Of Molecule A.
The 30s Subunit Can Be Found In Pdb Entry 3i9d. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9S|D Chain D, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|D Chain D, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XG0|D Chain D, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|D Chain D, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|3OH5|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OH7|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Chloramphenicol. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OHJ|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHK|D Chain D, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 50s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHZ|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI1|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI3|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI5|D Chain D, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 50s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQE|D Chain D, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XTG|D Chain D, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|D Chain D, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0V|D Chain D, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0X|D Chain D, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Z|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y11|D Chain D, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y13|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y15|D Chain D, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y17|D Chain D, Ef-Tu Complex 3
pdb|2Y19|D Chain D, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVP|D Chain D, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3UXQ|D Chain D, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXR|D Chain D, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UYE|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYG|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ1|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin
pdb|3UZ2|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ8|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZ9|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZF|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZH|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex.
pdb|3UZK|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZN|D Chain D, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 50s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4ABS|D Chain D, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DHA|D Chain D, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHC|D Chain D, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V23|D Chain D, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V25|D Chain D, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|3V27|D Chain D, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V29|D Chain D, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Entry Contains The 50s Subunit Of The 2nd Molecule In
The Asu.
pdb|3V2D|D Chain D, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 1st Ribosome In The Asu
pdb|3V2F|D Chain D, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 50s Subunit Of
The 2nd Ribosome In The Asu
pdb|4G5L|D Chain D, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5N|D Chain D, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 50s Subunit Of Molecule B.
pdb|4G5U|D Chain D, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule A.
pdb|4G5W|D Chain D, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 50s Subunit Of Molecule B
Length = 276
Score = 26.9 bits (58), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 12/93 (12%)
Query: 6 QRPYKIIDYKRERKVGV---VASSLEEIKRKAQDKLSNTSDNIK-ILLESDGTEIDEEDY 61
+R Y+IID+KR KVG+ VA+ + R A+ L + D K ++ DG ++ ++
Sbjct: 59 KRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRYIIAPDGLQVGQQVV 118
Query: 62 F---CTLENNTTLMVLFDNEKWTPVKQFVDAVD 91
++ L + F PV V AV+
Sbjct: 119 AGPDAPIQVGNALPLRF-----IPVGTVVHAVE 146
>pdb|3MRZ|C Chain C, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mrz Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms0.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (50s) And 3ms1 (30s).
pdb|3MS1|C Chain C, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms1 Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 3mr8.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s)
Length = 275
Score = 26.9 bits (58), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 12/93 (12%)
Query: 6 QRPYKIIDYKRERKVGV---VASSLEEIKRKAQDKLSNTSDNIK-ILLESDGTEIDEEDY 61
+R Y+IID+KR KVG+ VA+ + R A+ L + D K ++ DG ++ ++
Sbjct: 58 KRLYRIIDFKRWDKVGIPAKVAAIEYDPNRSARIALLHYVDGEKRYIIAPDGLQVGQQVV 117
Query: 62 F---CTLENNTTLMVLFDNEKWTPVKQFVDAVD 91
++ L + F PV V AV+
Sbjct: 118 AGPDAPIQVGNALPLRF-----IPVGTVVHAVE 145
>pdb|3EEQ|A Chain A, Crystal Structure Of A Putative Cobalamin Biosynthesis
Protein G Homolog From Sulfolobus Solfataricus
pdb|3EEQ|B Chain B, Crystal Structure Of A Putative Cobalamin Biosynthesis
Protein G Homolog From Sulfolobus Solfataricus
Length = 336
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 25/39 (64%), Gaps = 4/39 (10%)
Query: 1 MEEESQRPYKIID---YKRERKVGVVASSLEEIKRKAQD 36
MEE YK+++ KRER +G++AS EE+K+ A +
Sbjct: 222 MEEIRDGIYKVLERLNLKRER-IGIIASIREEVKKIADE 259
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
0.312 0.130 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,102,551
Number of Sequences: 62578
Number of extensions: 179339
Number of successful extensions: 414
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 401
Number of HSP's gapped (non-prelim): 18
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 48 (23.1 bits)