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= psy15201
(97 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MCA|A Chain A, Structure Of The Dom34-Hbs1 Complex And Implications For
Its Role In No-Go Decay
Length = 592
Score = 70.9 bits (172), Expect = 2e-13, Method: Composition-based stats.
Identities = 34/79 (43%), Positives = 49/79 (62%), Gaps = 2/79 (2%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFL-KQAGFRDSDIEYVPCSGLTGENLTTP 71
G++++ V +NKLD +SWS+DRFQEI + FL K GF+ S++ +VP S ++G NL
Sbjct: 314 GISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQK 373
Query: 72 SQVPALTSWYSGPCLLDVI 90
L WY GP LL +
Sbjct: 374 DS-SDLYKWYKGPTLLSAL 391
>pdb|3P26|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein
(Apo-Form), A Translational Gtpase Involved In Rna
Quality Control Pathways And Interacting With
Dom34PELOTA
pdb|3P26|B Chain B, Crystal Structure Of S. Cerevisiae Hbs1 Protein
(Apo-Form), A Translational Gtpase Involved In Rna
Quality Control Pathways And Interacting With
Dom34PELOTA
Length = 483
Score = 70.1 bits (170), Expect = 3e-13, Method: Composition-based stats.
Identities = 30/78 (38%), Positives = 47/78 (60%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
G++ L + +NK+D V WSQ RF+EI +KL +L GF + +I +VP SG +GE +
Sbjct: 170 GIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE 229
Query: 73 QVPALTSWYSGPCLLDVI 90
+ WY+GP L+ +
Sbjct: 230 YTDEVRQWYNGPNLMSTL 247
>pdb|3IZQ|1 Chain 1, Structure Of The Dom34-Hbs1-Gdpnp Complex Bound To A
Translating Ribosome
Length = 611
Score = 69.7 bits (169), Expect = 4e-13, Method: Composition-based stats.
Identities = 30/78 (38%), Positives = 47/78 (60%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
G++ L + +NK+D V WSQ RF+EI +KL +L GF + +I +VP SG +GE +
Sbjct: 304 GIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE 363
Query: 73 QVPALTSWYSGPCLLDVI 90
+ WY+GP L+ +
Sbjct: 364 YTDEVRQWYNGPNLMSTL 381
>pdb|3J2K|7 Chain 7, Cryo-Em Structure Of The Mammalian Erf1-Erf3-Associated
Termination Complex
Length = 439
Score = 67.0 bits (162), Expect = 2e-12, Method: Composition-based stats.
Identities = 36/78 (46%), Positives = 47/78 (60%), Gaps = 6/78 (7%)
Query: 9 SAVSGVNQLGVVINKLD--TVSWSQDRFQEIVTKLGAFLKQAGFR-DSDIEYVPCSGLTG 65
+ +GV L V+INK+D TV+WS +R++E KL FLK+ GF DI ++PCSGLTG
Sbjct: 150 AKTAGVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTG 209
Query: 66 ENLTTPSQVPALTSWYSG 83
NL S WY G
Sbjct: 210 ANLKEQSD---FCPWYIG 224
>pdb|1R5B|A Chain A, Crystal Structure Analysis Of Sup35
pdb|1R5N|A Chain A, Crystal Structure Analysis Of Sup35 Complexed With Gdp
pdb|1R5O|A Chain A, Crystal Structure Analysis Of Sup35 Complexed With Gmppnp
Length = 467
Score = 67.0 bits (162), Expect = 3e-12, Method: Composition-based stats.
Identities = 34/82 (41%), Positives = 54/82 (65%), Gaps = 5/82 (6%)
Query: 13 GVNQLGVVINKLD--TVSWSQDRFQEIVTKLGAFLKQ-AGFRD-SDIEYVPCSGLTGENL 68
G+N L VVINK+D +V WS++R++E V KL FL++ AG+ +D++Y+P S TG+N+
Sbjct: 180 GINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNV 239
Query: 69 TTPSQVPALTSWYSGPCLLDVI 90
++ WY GP LL+ +
Sbjct: 240 KDRVD-SSVCPWYQGPSLLEYL 260
>pdb|3P27|A Chain A, Crystal Structure Of S. Cerevisiae Hbs1 Protein (Gdp-Bound
Form), A Translational Gtpase Involved In Rna Quality
Control Pathways And Interacting With Dom34PELOTA
pdb|3P27|B Chain B, Crystal Structure Of S. Cerevisiae Hbs1 Protein (Gdp-Bound
Form), A Translational Gtpase Involved In Rna Quality
Control Pathways And Interacting With Dom34PELOTA
Length = 483
Score = 66.2 bits (160), Expect = 5e-12, Method: Composition-based stats.
Identities = 30/74 (40%), Positives = 43/74 (58%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
G++ L + NK D V WSQ RF+EI +KL +L GF + +I +VP SG +GE +
Sbjct: 170 GIHNLIIAXNKXDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE 229
Query: 73 QVPALTSWYSGPCL 86
+ WY+GP L
Sbjct: 230 YTDEVRQWYNGPNL 243
>pdb|1F60|A Chain A, Crystal Structure Of The Yeast Elongation Factor Complex
Eef1a:eef1ba
pdb|1G7C|A Chain A, Yeast Eef1a:eef1ba In Complex With Gdpnp
pdb|1IJE|A Chain A, Nucleotide Exchange Intermediates In The Eef1a-eef1ba
Complex
pdb|1IJF|A Chain A, Nucleotide Exchange Mechanisms In The Eef1a-Eef1ba Complex
pdb|2B7B|A Chain A, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a And Gdp
pdb|2B7C|A Chain A, Yeast Guanine Nucleotide Exchange Factor Eef1balpha K205a
Mutant In Complex With Eef1a
Length = 458
Score = 63.5 bits (153), Expect = 3e-11, Method: Composition-based stats.
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 3/71 (4%)
Query: 13 GVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPS 72
GV QL V +NK+D+V W + RFQEIV + F+K+ G+ + +VP SG G+N+
Sbjct: 144 GVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMI--- 200
Query: 73 QVPALTSWYSG 83
+ WY G
Sbjct: 201 EATTNAPWYKG 211
>pdb|1JNY|A Chain A, Crystal Structure Of Sulfolobus Solfataricus Elongation
Factor 1 Alpha In Complex With Gdp
pdb|1JNY|B Chain B, Crystal Structure Of Sulfolobus Solfataricus Elongation
Factor 1 Alpha In Complex With Gdp
pdb|1SKQ|A Chain A, The Crystal Structure Of Sulfolobus Solfataricus
Elongation Factor 1-Alpha In Complex With Magnesium And
Gdp
pdb|1SKQ|B Chain B, The Crystal Structure Of Sulfolobus Solfataricus
Elongation Factor 1-Alpha In Complex With Magnesium And
Gdp
Length = 435
Score = 54.7 bits (130), Expect = 1e-08, Method: Composition-based stats.
Identities = 25/76 (32%), Positives = 45/76 (59%), Gaps = 5/76 (6%)
Query: 13 GVNQLGVVINKLDTVS--WSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTT 70
G++QL V +NK+D + + R++EIV ++ F++ GF + + +VP +G+N+T
Sbjct: 143 GLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH 202
Query: 71 PSQVPALTSWYSGPCL 86
S+ WY+GP L
Sbjct: 203 KSEN---MKWYNGPTL 215
>pdb|3AGJ|A Chain A, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|C Chain C, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|E Chain E, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|G Chain G, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
Length = 437
Score = 53.9 bits (128), Expect = 2e-08, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 13 GVNQLGVVINKLDT--VSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTT 70
G+ Q+ V +NK+D V++ Q R++ +V+ L F+K G++ I ++P S G+NL
Sbjct: 143 GIEQIIVAVNKMDAPDVNYDQKRYEFVVSVLKKFMKGLGYQVDKIPFIPVSAWKGDNLIE 202
Query: 71 PSQVPALTSWYSGPCLLDVI 90
S P + WY+GP L++ +
Sbjct: 203 RS--PNM-PWYNGPTLVEAL 219
>pdb|3VMF|A Chain A, Archaeal Protein
Length = 440
Score = 53.9 bits (128), Expect = 2e-08, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 13 GVNQLGVVINKLDT--VSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTT 70
G+ Q+ V +NK+D V++ Q R++ +V+ L F+K G++ I ++P S G+NL
Sbjct: 146 GIEQIIVAVNKMDAPDVNYDQKRYEFVVSVLKKFMKGLGYQVDKIPFIPVSAWKGDNLIE 205
Query: 71 PSQVPALTSWYSGPCLLDVI 90
S P + WY+GP L++ +
Sbjct: 206 RS--PNM-PWYNGPTLVEAL 222
>pdb|1ZUN|B Chain B, Crystal Structure Of A Gtp-Regulated Atp Sulfurylase
Heterodimer From Pseudomonas Syringae
Length = 434
Score = 40.8 bits (94), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/82 (25%), Positives = 41/82 (50%), Gaps = 3/82 (3%)
Query: 9 SAVSGVNQLGVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENL 68
+++ G+ + V INK D + + F+ I F + F+ + +VP S L G+N+
Sbjct: 152 ASLLGIKHIVVAINKXDLNGFDERVFESIKADYLKFAEGIAFKPTTXAFVPXSALKGDNV 211
Query: 69 TTPSQVPALTSWYSGPCLLDVI 90
S+ + WY+G L +++
Sbjct: 212 VNKSE---RSPWYAGQSLXEIL 230
>pdb|1IHO|A Chain A, Crystal Apo-Structure Of Pantothenate Synthetase From E.
Coli
pdb|1IHO|B Chain B, Crystal Apo-Structure Of Pantothenate Synthetase From E.
Coli
Length = 283
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 27/64 (42%)
Query: 25 DTVSWSQDRFQEIVTKLGAFLKQAGFRDSDIEYVPCSGLTGENLTTPSQVPALTSWYSGP 84
D + + EI+T G L + GFR DI+ L + T+ V + +W
Sbjct: 213 DKLQAGERDLDEIITIAGQELNEKGFRADDIQIRDADTLLEVSETSKRAVILVAAWLGDA 272
Query: 85 CLLD 88
L+D
Sbjct: 273 RLID 276
>pdb|4G59|A Chain A, Crystal Structure Of The Murine Cytomegalovirus Mhc-I
Homolog M152 With Ligand Rae-1 Gamma
pdb|4G59|B Chain B, Crystal Structure Of The Murine Cytomegalovirus Mhc-I
Homolog M152 With Ligand Rae-1 Gamma
Length = 205
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%)
Query: 67 NLTTPSQVPALTSWYSGPCLLDVIGLSGLS 96
NLT + PA WY CL+D I + LS
Sbjct: 11 NLTIKAPTPADPLWYEAKCLVDEILILHLS 40
>pdb|2FHB|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltose
pdb|2FHC|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotriose
pdb|2FHF|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Maltotetraose
Length = 1083
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 13/83 (15%)
Query: 18 GVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGF----------RDSDIEYVPCSGLTGEN 67
GV+ N+L T+S Q R +T+LG A F R S+I+Y +G G
Sbjct: 763 GVLPNELTTLSDDQARHLADLTRLGMAGNLADFVLIDKDGAVKRGSEIDY---NGAPGGY 819
Query: 68 LTTPSQVPALTSWYSGPCLLDVI 90
P++V S + L D+I
Sbjct: 820 AADPTEVVNYVSKHDNQTLWDMI 842
>pdb|2FH8|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Isomaltose
Length = 922
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 13/83 (15%)
Query: 18 GVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGF----------RDSDIEYVPCSGLTGEN 67
GV+ N+L T+S Q R +T+LG A F R S+I+Y +G G
Sbjct: 602 GVLPNELTTLSDDQARHLADLTRLGMAGNLADFVLIDKDGAVKRGSEIDY---NGAPGGY 658
Query: 68 LTTPSQVPALTSWYSGPCLLDVI 90
P++V S + L D+I
Sbjct: 659 AADPTEVVNYVSKHDNQTLWDMI 681
>pdb|2FGZ|A Chain A, Crystal Structure Analysis Of Apo Pullulanase From
Klebsiella Pneumoniae
Length = 926
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 13/83 (15%)
Query: 18 GVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGF----------RDSDIEYVPCSGLTGEN 67
GV+ N+L T+S Q R +T+LG A F R S+I+Y +G G
Sbjct: 606 GVLPNELTTLSDDQARHLADLTRLGMAGNLADFVLIDKDGAVKRGSEIDY---NGAPGGY 662
Query: 68 LTTPSQVPALTSWYSGPCLLDVI 90
P++V S + L D+I
Sbjct: 663 AADPTEVVNYVSKHDNQTLWDMI 685
>pdb|2FH6|A Chain A, Crystal Structure Analysis Of Klebsiella Pneumoniae
Pullulanase Complexed With Glucose
Length = 920
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 13/83 (15%)
Query: 18 GVVINKLDTVSWSQDRFQEIVTKLGAFLKQAGF----------RDSDIEYVPCSGLTGEN 67
GV+ N+L T+S Q R +T+LG A F R S+I+Y +G G
Sbjct: 600 GVLPNELTTLSDDQARHLADLTRLGMAGNLADFVLIDKDGAVKRGSEIDY---NGAPGGY 656
Query: 68 LTTPSQVPALTSWYSGPCLLDVI 90
P++V S + L D+I
Sbjct: 657 AADPTEVVNYVSKHDNQTLWDMI 679
>pdb|2J6I|A Chain A, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|B Chain B, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|C Chain C, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
pdb|2J6I|D Chain D, Candida Boidinii Formate Dehydrogenase (Fdh) C-Terminal
Mutant
Length = 364
Score = 26.2 bits (56), Expect = 4.8, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 5 DGGKSAVSGVNQLGVVINKLDTVSWSQDRFQEIVT 39
D GK A G NKL +W +D+ E++T
Sbjct: 9 DAGKHAADEEKLYGCTENKLGIANWLKDQGHELIT 43
>pdb|2FSS|A Chain A, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|B Chain B, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|C Chain C, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
pdb|2FSS|D Chain D, Candida Boidinii Formate Dehydrogenase (Fdh) K47e Mutant
Length = 365
Score = 26.2 bits (56), Expect = 4.8, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 5 DGGKSAVSGVNQLGVVINKLDTVSWSQDRFQEIVT 39
D GK A G NKL +W +D+ E++T
Sbjct: 10 DAGKHAADEEKLYGCTENKLGIANWLKDQGHELIT 44
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
0.317 0.136 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,141,551
Number of Sequences: 62578
Number of extensions: 113669
Number of successful extensions: 297
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 268
Number of HSP's gapped (non-prelim): 27
length of query: 97
length of database: 14,973,337
effective HSP length: 63
effective length of query: 34
effective length of database: 11,030,923
effective search space: 375051382
effective search space used: 375051382
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)