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= psy6196
(146 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MCA|B Chain B, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 390
Score = 108 bits (270), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 50/100 (50%), Positives = 69/100 (69%)
Query: 36 FTPAVGYYYYCGRNIQENQYVKMGAYHTLDLELNRKFELSKPEWDSIALERIEVACNIEK 95
F + GR + + VKMG+YHTLDLEL+R F L K EWD+ AL+R++ ACN +
Sbjct: 74 FDTKAAQLHIKGRTTEYHPEVKMGSYHTLDLELHRNFTLYKNEWDAFALDRVDAACNPSR 133
Query: 96 TADVAAVMMQEGLANIMLITASMSLVRTKIETNIPRKRRG 135
A++ AV++ EGLANI LIT M+++R +I+ IPRKRRG
Sbjct: 134 NAEIGAVVLDEGLANICLITDYMTILRQRIDQVIPRKRRG 173
Score = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 18/30 (60%), Positives = 22/30 (73%)
Query: 1 MGAYHTLDLELNRKFELSKPEWDSLYTARI 30
MG+YHTLDLEL+R F L K EWD+ R+
Sbjct: 96 MGSYHTLDLELHRNFTLYKNEWDAFALDRV 125
>pdb|2VGM|A Chain A, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-Go Decay.
pdb|3IZQ|0 Chain 0, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
pdb|3J16|A Chain A, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 386
Score = 60.5 bits (145), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 53/82 (64%)
Query: 53 NQYVKMGAYHTLDLELNRKFELSKPEWDSIALERIEVACNIEKTADVAAVMMQEGLANIM 112
N + +G Y + L+ F + K ++ + + ACNIE +D AAV++QEG+A++
Sbjct: 96 NVDIPVGKYLSFTLDYVYPFTIIKQNFNKFMQKLLNEACNIEYKSDTAAVVLQEGIAHVC 155
Query: 113 LITASMSLVRTKIETNIPRKRR 134
L+T+S ++++ KIE ++P+K+R
Sbjct: 156 LVTSSSTILKQKIEYSMPKKKR 177
>pdb|2VGN|A Chain A, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-go Decay.
pdb|2VGN|B Chain B, Structure Of Yeast Dom34 : A Protein Related To
Translation Termination Factor Erf1 And Involved In
No-go Decay
Length = 386
Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 52/82 (63%)
Query: 53 NQYVKMGAYHTLDLELNRKFELSKPEWDSIALERIEVACNIEKTADVAAVMMQEGLANIM 112
N + +G Y + L+ F + K ++ + + ACNIE +D AAV++QEG+A++
Sbjct: 96 NVDIPVGKYLSFTLDYVYPFTIIKQNFNKFXQKLLNEACNIEYKSDTAAVVLQEGIAHVC 155
Query: 113 LITASMSLVRTKIETNIPRKRR 134
L+T+S ++++ KIE + P+K+R
Sbjct: 156 LVTSSSTILKQKIEYSXPKKKR 177
>pdb|3J15|A Chain A, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 357
Score = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 38/78 (48%)
Query: 56 VKMGAYHTLDLELNRKFELSKPEWDSIALERIEVACNIEKTADVAAVMMQEGLANIMLIT 115
V +G YHT+ +E + KP W +ER++ A K A V V++ +G A++ L+
Sbjct: 93 VPLGKYHTIAIEQGTVVTIQKPRWKEHHIERLKEAVAASKRARVMIVVIDDGEADMALVR 152
Query: 116 ASMSLVRTKIETNIPRKR 133
+ I N+ KR
Sbjct: 153 EYGVEILNSIRHNLGGKR 170
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 1 MGAYHTLDLELNRKFELSKPEWDSLYTARI 30
+G YHT+ +E + KP W + R+
Sbjct: 95 LGKYHTIAIEQGTVVTIQKPRWKEHHIERL 124
>pdb|3OBW|A Chain A, Crystal Structure Of Two Archaeal Pelotas Reveal
Inter-Domain Structural Plasticity
Length = 364
Score = 28.9 bits (63), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 28/53 (52%)
Query: 59 GAYHTLDLELNRKFELSKPEWDSIALERIEVACNIEKTADVAAVMMQEGLANI 111
GA+HT++L++ + + K +W+ L+R++ N +A V E L I
Sbjct: 110 GAHHTINLDIGDEIIIIKQQWNKYVLDRLKRQANKRSRIIIALVDFDEYLIAI 162
>pdb|1KOE|A Chain A, Endostatin
Length = 172
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 11 LNRKFELSKPEWDSLYTARIGLKSPFTPAVGYYYYCGRNI-QENQYVKMGAYHTLDLELN 69
+N K E+ P WDSL++ G + P + + GR++ + + + +H D
Sbjct: 66 VNLKDEVLSPSWDSLFS---GSQGQLQPGARIFSFDGRDVLRHPAWPQKSVWHGSDPSGR 122
Query: 70 RKFE 73
R E
Sbjct: 123 RLME 126
>pdb|1DY0|A Chain A, Murine Endostatin, Crystal Form Ii
pdb|1DY1|A Chain A, Murine Endostatin, Crystal Form Iii
Length = 188
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 4/64 (6%)
Query: 11 LNRKFELSKPEWDSLYTARIGLKSPFTPAVGYYYYCGRNI-QENQYVKMGAYHTLDLELN 69
+N K E+ P WDSL++ G + P + + GR++ + + + +H D
Sbjct: 76 VNLKDEVLSPSWDSLFS---GSQGQLQPGARIFSFDGRDVLRHPAWPQKSVWHGSDPSGR 132
Query: 70 RKFE 73
R E
Sbjct: 133 RLME 136
>pdb|4B10|A Chain A, Plasmodium Vivax N-Myristoyltransferase With A Non-
Hydrolysable Co-Factor
pdb|4B10|B Chain B, Plasmodium Vivax N-Myristoyltransferase With A Non-
Hydrolysable Co-Factor
pdb|4B10|C Chain C, Plasmodium Vivax N-Myristoyltransferase With A Non-
Hydrolysable Co-Factor
pdb|4B11|A Chain A, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 13)
pdb|4B11|B Chain B, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 13)
pdb|4B11|C Chain C, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 13)
pdb|4B12|A Chain A, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 23)
pdb|4B12|B Chain B, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 23)
pdb|4B12|C Chain C, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 23)
pdb|4B13|A Chain A, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 25)
pdb|4B13|B Chain B, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 25)
pdb|4B13|C Chain C, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 25)
pdb|4B14|A Chain A, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 26)
pdb|4B14|B Chain B, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 26)
pdb|4B14|C Chain C, Plasmodium Vivax N-Myristoyltransferase With A Bound
Benzofuran Inhibitor (Compound 26)
Length = 385
Score = 27.3 bits (59), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 19/98 (19%)
Query: 10 ELNRKFELSKPEWDSLYTARIGLKSPFTPAVGYYYYCGRNIQENQYVKMGAYHTLDLELN 69
E+ R+ L W ++YTA + L P + A Y+ R+I + +++G LN
Sbjct: 156 EITRRINLENI-WQAIYTAGVYLPKPVSDARYYH----RSINVKKLIEIGF-----SSLN 205
Query: 70 RKFELSKPEWDSIALERIEVACNIE-----KTADVAAV 102
+ +S+ +I L R+E NI+ K DV V
Sbjct: 206 SRLTMSR----AIKLYRVEDTLNIKNMRLMKKKDVEGV 239
>pdb|4A95|A Chain A, Plasmodium Vivax N-Myristoyltransferase With Quinoline
Inhibitor
pdb|4A95|B Chain B, Plasmodium Vivax N-Myristoyltransferase With Quinoline
Inhibitor
pdb|4A95|C Chain C, Plasmodium Vivax N-Myristoyltransferase With Quinoline
Inhibitor
pdb|4BBH|A Chain A, Plasmodium Vivax N-myristoyltransferase With A Bound
Benzothiophene Inhibitor
pdb|4BBH|B Chain B, Plasmodium Vivax N-myristoyltransferase With A Bound
Benzothiophene Inhibitor
pdb|4BBH|C Chain C, Plasmodium Vivax N-myristoyltransferase With A Bound
Benzothiophene Inhibitor
Length = 384
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 19/98 (19%)
Query: 10 ELNRKFELSKPEWDSLYTARIGLKSPFTPAVGYYYYCGRNIQENQYVKMGAYHTLDLELN 69
E+ R+ L W ++YTA + L P + A Y+ R+I + +++G LN
Sbjct: 155 EITRRINLENI-WQAIYTAGVYLPKPVSDARYYH----RSINVKKLIEIGF-----SSLN 204
Query: 70 RKFELSKPEWDSIALERIEVACNIE-----KTADVAAV 102
+ +S+ +I L R+E NI+ K DV V
Sbjct: 205 SRLTMSR----AIKLYRVEDTLNIKNMRLMKKKDVEGV 238
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
0.321 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,017,152
Number of Sequences: 62578
Number of extensions: 144565
Number of successful extensions: 249
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 239
Number of HSP's gapped (non-prelim): 14
length of query: 146
length of database: 14,973,337
effective HSP length: 90
effective length of query: 56
effective length of database: 9,341,317
effective search space: 523113752
effective search space used: 523113752
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: 46 (22.3 bits)