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= psy2756
(112 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZS|N Chain N, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|N Chain N, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|N Chain N, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|M Chain M, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|M Chain M, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|M Chain M, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 138
Score = 98.6 bits (244), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 48/97 (49%), Positives = 62/97 (63%)
Query: 14 RFVQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGPETGVPRSALRLNQLHLTKLKINF 73
R V+ GRVV I G GKL++IV++I+Q VL+DGP+ GVPR A+ L Q+ LT L
Sbjct: 13 RLVEVGRVVLIKKGQSAGKLAAIVEIIDQKKVLIDGPKAGVPRQAINLGQVVLTPLTFAL 72
Query: 74 PFNARTKVVRKAWKDGQVEEKWSKSLWAQKVANVEKR 110
P ART V K W V EKW+ S WA+K+A E+R
Sbjct: 73 PRGARTATVSKKWAAAAVCEKWAASSWAKKIAQRERR 109
>pdb|4A18|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2.
pdb|4ADX|7 Chain 7, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 126
Score = 67.4 bits (163), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 63/100 (63%), Gaps = 3/100 (3%)
Query: 12 FKRFVQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGPETGVPRSALRLNQLHLTKLKI 71
F +FVQ GRVV I+ G +GKL+ IV++INQ +L+DG + R + + ++HLTK +I
Sbjct: 3 FNKFVQVGRVVYINYGADKGKLAVIVNIINQNRILIDGEH--IVRQVIPIRRVHLTKFQI 60
Query: 72 -NFPFNARTKVVRKAWKDGQVEEKWSKSLWAQKVANVEKR 110
N N RT +++K + +K++++ +A+K A KR
Sbjct: 61 DNVELNQRTVLLKKKIAKFDLTKKYAETSFAKKQAIKTKR 100
>pdb|3IZR|N Chain N, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 134
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 37/100 (37%), Positives = 58/100 (58%), Gaps = 3/100 (3%)
Query: 12 FKRFVQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGPETGVPRSALRLNQLHLTKLKI 71
FKRFV+ GRV ++ G G+L IVDV++Q LVD P+ + R + +L LT +KI
Sbjct: 3 FKRFVEIGRVALVNYGKDYGRLVVIVDVVDQNRALVDAPD--MVRCQINFKRLSLTDIKI 60
Query: 72 NFPFNARTKVVRKAWKDGQVEEKWSKSLWAQKVANVEKRK 111
+ + + KA ++ V+ KW S W +K+ V+KR+
Sbjct: 61 DIKRVPKKTTLIKAMEEADVKNKWENSSWGKKLI-VQKRR 99
>pdb|3ZF7|P Chain P, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 189
Score = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 47/83 (56%), Gaps = 1/83 (1%)
Query: 15 FVQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGP-ETGVPRSALRLNQLHLTKLKINF 73
+++ GR+VRI GP + ++ IVD+++ VLV+ P E + R L + K ++
Sbjct: 6 YIRAGRLVRILRGPRQNRVGVIVDIVDANRVLVENPCEQKMWRHVQNLKNVEPLKFCVSI 65
Query: 74 PFNARTKVVRKAWKDGQVEEKWS 96
N TK +++A + +V EK++
Sbjct: 66 SRNCSTKALKEALESKKVLEKYA 88
>pdb|2JOY|A Chain A, Nmr Structure Of 50s Ribosomal Protein L14e From
Sulfolobus Solfataricus: Northeast Structural Genomics
Consortium Target Ssr105
Length = 96
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 16 VQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGPE--TGVPRSALRLNQLHL--TKLKI 71
++ GR+ G G IVD+I+ VLV GP+ TGV R R+N LHL T KI
Sbjct: 4 IEVGRICVKVKGREAGSKCVIVDIIDDNFVLVTGPKDITGVKRR--RVNILHLEPTDKKI 61
Query: 72 NFPFNARTKVVRKAWKDGQVEE 93
+ A + V+K ++ + E
Sbjct: 62 DIQKGASDEEVKKKLEESNLTE 83
>pdb|2KDS|A Chain A, Structure Of Ribosomal Protein L14e From Sulfolobus
Solfataricus
Length = 95
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 29/82 (35%), Positives = 42/82 (51%), Gaps = 6/82 (7%)
Query: 16 VQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGPE--TGVPRSALRLNQLHL--TKLKI 71
++ GR+ G G IVD+I+ VLV GP+ TGV R R+N LHL T KI
Sbjct: 3 IEVGRICVKVKGREAGSKCVIVDIIDDNFVLVTGPKDITGVKRR--RVNILHLEPTDKKI 60
Query: 72 NFPFNARTKVVRKAWKDGQVEE 93
+ A + V+K ++ + E
Sbjct: 61 DIQKGASDEEVKKKLEESNLTE 82
>pdb|1IDQ|A Chain A, Crystal Structure Of Native Vanadium-Containing
Chloroperoxidase From Curvularia Inaequalis
pdb|1VNC|A Chain A, Chloroperoxidase From The Fungus Curvularia Inaequalis
pdb|1VNI|A Chain A, Chloroperoxidase From The Fungus Curvularia Inaequalis:
Recombinant Holo-Chloroperoxidase
pdb|1VNS|A Chain A, Recombinant Apo-chloroperoxidase From Curvularia
Inaequalis
Length = 609
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|1VNG|A Chain A, Chloroperoxidase From The Fungus Curvularia Inaequalis:
Mutant H404a
Length = 609
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|1VNH|A Chain A, Chloroperoxidase From The Fungus Curvularia Inaequalis:
Mutant H496a
Length = 609
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|1VNE|A Chain A, Chloroperoxidase From The Fungus Curvularia Inaequalis:
Mutant D292a
Length = 609
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|1VNF|A Chain A, Chloroperoxidase From The Fungus Curvularia Inaequalis:
Mutant R360a
Length = 609
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|1IDU|A Chain A, Crystal Structure Of The Peroxide Form Of The Vanadium-
Containing Chloroperoxidase From Curvularia Inaequalis
Length = 609
Score = 28.1 bits (61), Expect = 1.4, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|3J21|5 Chain 5, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
pdb|3J21|K Chain K, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 83
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 37/75 (49%), Gaps = 5/75 (6%)
Query: 16 VQTGRVVRISDGPYRGKLSSIVDVINQTTVLVDGPETG-VPRSALRLNQLHLTKL--KIN 72
+ GR+ + G G+ +VD+I++ VLV G V R R+N H+ L KI+
Sbjct: 4 IDVGRIAVVIAGRRAGQKVVVVDIIDKNFVLVTGAGLNKVKRR--RMNIKHIEPLPQKID 61
Query: 73 FPFNARTKVVRKAWK 87
P A + VR A +
Sbjct: 62 IPRGASDEEVRAALE 76
>pdb|3BB0|A Chain A, Crystal Structure Of A Trapped Phosphate-Intermediate In
Vanadium Apochloroperoxidase Catalyzing A
Dephosphorylation Reaction
Length = 609
Score = 27.7 bits (60), Expect = 1.5, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 40 INQTTVLVDGPETGVPRSALRLNQLHL 66
+N+ T V GP TG P SA L LHL
Sbjct: 33 LNRVTHTVGGPLTGPPLSARALGMLHL 59
>pdb|2E70|A Chain A, Solution Structure Of The Fifth Kow Motif Of Human
Transcription Elongation Factor Spt5
Length = 71
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 19 GRVVRISDGPYRGKLSSIVDVINQT 43
G+ VRIS GPY+G + + D T
Sbjct: 21 GQTVRISQGPYKGYIGVVKDATEST 45
>pdb|1UM9|B Chain B, Branched-chain 2-oxo Acid Dehydrogenase (e1) From Thermus
Thermophilus Hb8 In Apo-form
pdb|1UM9|D Chain D, Branched-chain 2-oxo Acid Dehydrogenase (e1) From Thermus
Thermophilus Hb8 In Apo-form
pdb|1UMB|B Chain B, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 In Holo-Form
pdb|1UMB|D Chain D, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 In Holo-Form
pdb|1UMC|B Chain B, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methylpentanoate
pdb|1UMC|D Chain D, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methylpentanoate
pdb|1UMD|B Chain B, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methyl-2-Oxopentanoate As An
Intermediate
pdb|1UMD|D Chain D, Branched-Chain 2-Oxo Acid Dehydrogenase (E1) From Thermus
Thermophilus Hb8 With 4-Methyl-2-Oxopentanoate As An
Intermediate
Length = 324
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 9/77 (11%)
Query: 2 TIVKHNYNGAFKRFVQTGRVVRISDGPYRGKLSS---------IVDVINQTTVLVDGPET 52
T++ +Y +TGRVV +SD P S ++D++ + V G +T
Sbjct: 238 TLMPWDYEAVMNSVAKTGRVVLVSDAPRHASFVSEVAATIAEDLLDMLLAPPIRVTGFDT 297
Query: 53 GVPRSALRLNQLHLTKL 69
P + +L +T++
Sbjct: 298 PYPYAQDKLYLPTVTRI 314
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
0.318 0.133 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,425,918
Number of Sequences: 62578
Number of extensions: 117587
Number of successful extensions: 254
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 233
Number of HSP's gapped (non-prelim): 21
length of query: 112
length of database: 14,973,337
effective HSP length: 76
effective length of query: 36
effective length of database: 10,217,409
effective search space: 367826724
effective search space used: 367826724
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)