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= 031294
(162 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1HPC|A Chain A, Refined Structures At 2 Angstroms And 2.2 Angstroms Of The
Two Forms Of The H-Protein, A Lipoamide-Containing
Protein Of The Glycine Decarboxylase
pdb|1HPC|B Chain B, Refined Structures At 2 Angstroms And 2.2 Angstroms Of The
Two Forms Of The H-Protein, A Lipoamide-Containing
Protein Of The Glycine Decarboxylase
pdb|1DXM|A Chain A, Reduced Form Of The H Protein From Glycine Decarboxylase
Complex
pdb|1DXM|B Chain B, Reduced Form Of The H Protein From Glycine Decarboxylase
Complex
pdb|1HTP|A Chain A, Refined Structures At 2 Angstroms And 2.2 Angstroms Of The
Two Forms Of The H-Protein, A Lipoamide-Containing
Protein Of The Glycine Decarboxylase Complex
Length = 131
Score = 221 bits (564), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 106/131 (80%), Positives = 118/131 (90%)
Query: 32 SSVLDGLKYASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVE 91
S+VLDGLKYA SHEWVKHEGSVAT+GITDHAQDHLGEVVFVELPE G SV +G GFG VE
Sbjct: 1 SNVLDGLKYAPSHEWVKHEGSVATIGITDHAQDHLGEVVFVELPEPGVSVTKGKGFGAVE 60
Query: 92 SVKATSDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAY 151
SVKATSDVNSPISGEVIEVNT LT PGL+NSSPYE+GW+IK+KP+SP +LESL+ + Y
Sbjct: 61 SVKATSDVNSPISGEVIEVNTGLTGKPGLINSSPYEDGWMIKIKPTSPDELESLLGAKEY 120
Query: 152 TKFCEEENAAH 162
TKFCEEE+AAH
Sbjct: 121 TKFCEEEDAAH 131
>pdb|2KA7|A Chain A, Nmr Solution Structure Of Tm0212 At 40 C
Length = 124
Score = 137 bits (346), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 64/120 (53%), Positives = 85/120 (70%)
Query: 39 KYASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSD 98
KY +HEWV E VATVGIT+HAQ+ LG+VV+V+LPE G VK+G +ESVKA +D
Sbjct: 5 KYTKTHEWVSIEDKVATVGITNHAQEQLGDVVYVDLPEVGREVKKGEVVASIESVKAAAD 64
Query: 99 VNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKFCEEE 158
V +P+SG+++EVN KL P L+N P EGWL K++ S +LE L+D QAY +FC +E
Sbjct: 65 VYAPLSGKIVEVNEKLDTEPELINKDPEGEGWLFKMEISDEGELEDLLDEQAYQEFCAQE 124
>pdb|3A7A|B Chain B, Crystal Structure Of E. Coli Lipoate-protein Ligase A In
Complex With Octyl-amp And Apoh-protein
pdb|3A7A|D Chain D, Crystal Structure Of E. Coli Lipoate-protein Ligase A In
Complex With Octyl-amp And Apoh-protein
pdb|3A7L|A Chain A, Crystal Structure Of E. Coli Apoh-Protein
Length = 128
Score = 134 bits (336), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 64/122 (52%), Positives = 86/122 (70%), Gaps = 1/122 (0%)
Query: 38 LKYASSHEWVKHEGS-VATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKAT 96
LKY+ HEW++ E TVGIT+HAQ+ LG++VFV+LPE GA+V G V ESVKA
Sbjct: 7 LKYSKEHEWLRKEADGTYTVGITEHAQELLGDMVFVDLPEVGATVSAGDDCAVAESVKAA 66
Query: 97 SDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKFCE 156
SD+ +P+SGE++ VN L+++P LVNS PY GW+ K+K S S+LESL+D AY E
Sbjct: 67 SDIYAPVSGEIVAVNDALSDSPELVNSEPYAGGWIFKIKASDESELESLLDATAYEALLE 126
Query: 157 EE 158
+E
Sbjct: 127 DE 128
>pdb|1ZKO|A Chain A, Crystal Structure Of Glycine Cleavage System H Protein
(Tm0212) From Thermotoga Maritima At 1.65 A Resolution
pdb|1ZKO|B Chain B, Crystal Structure Of Glycine Cleavage System H Protein
(Tm0212) From Thermotoga Maritima At 1.65 A Resolution
Length = 136
Score = 134 bits (336), Expect = 3e-32, Method: Compositional matrix adjust.
Identities = 63/119 (52%), Positives = 83/119 (69%)
Query: 40 YASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSDV 99
Y +HEWV E VATVGIT+HAQ+ LG+VV+V+LPE G VK+G +ESVKA +DV
Sbjct: 18 YTKTHEWVSIEDKVATVGITNHAQEQLGDVVYVDLPEVGREVKKGEVVASIESVKAAADV 77
Query: 100 NSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKFCEEE 158
+P+SG+++EVN KL P L+N P EGWL K + S +LE L+D QAY +FC +E
Sbjct: 78 YAPLSGKIVEVNEKLDTEPELINKDPEGEGWLFKXEISDEGELEDLLDEQAYQEFCAQE 136
>pdb|3A8I|E Chain E, Crystal Structure Of Et-Ehred-5-Ch3-Thf Complex
pdb|3A8I|F Chain F, Crystal Structure Of Et-Ehred-5-Ch3-Thf Complex
pdb|3A8J|E Chain E, Crystal Structure Of Et-Ehred Complex
pdb|3A8J|F Chain F, Crystal Structure Of Et-Ehred Complex
pdb|3A8K|E Chain E, Crystal Structure Of Etd97n-Ehred Complex
pdb|3A8K|F Chain F, Crystal Structure Of Etd97n-Ehred Complex
pdb|3AB9|A Chain A, Crystal Structure Of Lipoylated E. Coli H-Protein (Reduced
Form)
Length = 129
Score = 132 bits (331), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 65/129 (50%), Positives = 88/129 (68%), Gaps = 1/129 (0%)
Query: 31 FSSVLDGLKYASSHEWVKHEGS-VATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGV 89
S+V LKY+ HEW++ E TVGIT+HAQ+ LG++VFV+LPE GA+V G V
Sbjct: 1 MSNVPAELKYSKEHEWLRKEADGTYTVGITEHAQELLGDMVFVDLPEVGATVSAGDDCAV 60
Query: 90 VESVKATSDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQ 149
ESV A SD+ +P+SGE++ VN L+++P LVNS PY GW+ K+K S S+LESL+D
Sbjct: 61 AESVXAASDIYAPVSGEIVAVNDALSDSPELVNSEPYAGGWIFKIKASDESELESLLDAT 120
Query: 150 AYTKFCEEE 158
AY E+E
Sbjct: 121 AYEALLEDE 129
>pdb|1ONL|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8 H-Protein Of
The Glycine Cleavage System
pdb|1ONL|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8 H-Protein Of
The Glycine Cleavage System
pdb|1ONL|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8 H-Protein Of
The Glycine Cleavage System
Length = 128
Score = 131 bits (329), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 60/119 (50%), Positives = 79/119 (66%)
Query: 40 YASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSDV 99
Y +HEW EG VGITD+AQD LG+VV+VELPE G V++G VVESVK SD+
Sbjct: 9 YTKTHEWALPEGDTVLVGITDYAQDALGDVVYVELPEVGRVVEKGEAVAVVESVKTASDI 68
Query: 100 NSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKFCEEE 158
+P++GE++EVN L +TP LVN PY EGW+ ++KP DL+ L+D Y + E E
Sbjct: 69 YAPVAGEIVEVNLALEKTPELVNQDPYGEGWIFRLKPRDMGDLDELLDAGGYQEVLESE 127
>pdb|2EDG|A Chain A, Solution Structure Of The Gcv_h Domain From Mouse Glycine
Length = 130
Score = 130 bits (328), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 62/118 (52%), Positives = 82/118 (69%)
Query: 37 GLKYASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKAT 96
G K+ HEW+ E + TVGI++ AQ+ LG+VV+ LPE G +K+ FG +ESVKA
Sbjct: 7 GRKFTEKHEWITTEEGIGTVGISNFAQEALGDVVYCSLPEVGTKLKKQEEFGALESVKAA 66
Query: 97 SDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKF 154
S++ SP+SGEV EVN L E PGLVN S YE+GWLIK+ S PS+L+ LM +AY K+
Sbjct: 67 SELYSPLSGEVTEVNEALAENPGLVNKSCYEDGWLIKMTLSDPSELDELMSEEAYEKY 124
>pdb|3KLR|A Chain A, Bovine H-Protein At 0.88 Angstrom Resolution
Length = 125
Score = 129 bits (324), Expect = 8e-31, Method: Compositional matrix adjust.
Identities = 61/116 (52%), Positives = 81/116 (69%)
Query: 39 KYASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSD 98
K+ HEWV E V TVGI++ AQ+ LG+VV+ LPE G + + FG +ESVKA S+
Sbjct: 4 KFTEKHEWVTTENGVGTVGISNFAQEALGDVVYCSLPEVGTKLNKQEEFGALESVKAASE 63
Query: 99 VNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKF 154
+ SP+SGEV E+N L E PGLVN S YE+GWLIK+ S+PS+L+ LM +AY K+
Sbjct: 64 LYSPLSGEVTEINKALAENPGLVNKSCYEDGWLIKMTFSNPSELDELMSEEAYEKY 119
>pdb|3MXU|A Chain A, Crystal Structure Of Glycine Cleavage System Protein H
From Henselae
Length = 143
Score = 120 bits (302), Expect = 3e-28, Method: Compositional matrix adjust.
Identities = 55/116 (47%), Positives = 75/116 (64%)
Query: 40 YASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSDV 99
+ HEW+ EG V TVGITD+AQ+ LG++VF++LP+ G + +G VVESVKA SDV
Sbjct: 27 FTQDHEWLSVEGQVVTVGITDYAQEQLGDLVFIDLPQNGTKLSKGDAAAVVESVKAASDV 86
Query: 100 NSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKFC 155
+P+ GEV+E+N L E+P LVN EGWL K+ + LE L+D AY +
Sbjct: 87 YAPLDGEVVEINAALAESPELVNQKAETEGWLWKMTVQDETQLERLLDEAAYKELI 142
>pdb|3IFT|A Chain A, Crystal Structure Of Glycine Cleavage System Protein H
From Mycobacterium Tuberculosis, Using X-Rays From The
Compact L Source
Length = 142
Score = 111 bits (278), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 59/121 (48%), Positives = 77/121 (63%), Gaps = 7/121 (5%)
Query: 38 LKYASSHEWVKHEGS-VATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKAT 96
L Y + HEW++ G VGITD+AQ LG+VVFV+LP G +V G FG VES K+
Sbjct: 16 LHYTAEHEWIRRSGDDTVRVGITDYAQSALGDVVFVQLPVIGTAVTAGETFGEVESTKSV 75
Query: 97 SDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSP------SDLESLMDPQA 150
SD+ +PISG+V EVN+ L TP LVNS PY GWL+ ++ S S L +L+D +A
Sbjct: 76 SDLYAPISGKVSEVNSDLDGTPQLVNSDPYGAGWLLDIQVDSSDVAALESALTTLLDAEA 135
Query: 151 Y 151
Y
Sbjct: 136 Y 136
>pdb|3HGB|A Chain A, Crystal Structure Of Glycine Cleavage System Protein H
From Mycobacterium Tuberculosis
Length = 155
Score = 111 bits (278), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 60/129 (46%), Positives = 79/129 (61%), Gaps = 7/129 (5%)
Query: 30 CFSSVLDGLKYASSHEWVKHEGS-VATVGITDHAQDHLGEVVFVELPETGASVKQGGGFG 88
S + L Y + HEW++ G VGITD+AQ LG+VVFV+LP G +V G FG
Sbjct: 21 SMSDIPSDLHYTAEHEWIRRSGDDTVRVGITDYAQSALGDVVFVQLPVIGTAVTAGETFG 80
Query: 89 VVESVKATSDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSP------SDL 142
VES K+ SD+ +PISG+V EVN+ L TP LVNS PY GWL+ ++ S S L
Sbjct: 81 EVESTKSVSDLYAPISGKVSEVNSDLDGTPQLVNSDPYGAGWLLDIQVDSSDVAALESAL 140
Query: 143 ESLMDPQAY 151
+L+D +AY
Sbjct: 141 TTLLDAEAY 149
>pdb|3TZU|A Chain A, Crystal Structure Of A Glycine Cleavage System H Protein
(Gcvh) From Mycobacterium Marinum
pdb|3TZU|B Chain B, Crystal Structure Of A Glycine Cleavage System H Protein
(Gcvh) From Mycobacterium Marinum
pdb|3TZU|C Chain C, Crystal Structure Of A Glycine Cleavage System H Protein
(Gcvh) From Mycobacterium Marinum
pdb|3TZU|D Chain D, Crystal Structure Of A Glycine Cleavage System H Protein
(Gcvh) From Mycobacterium Marinum
Length = 137
Score = 85.9 bits (211), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 45/109 (41%), Positives = 64/109 (58%), Gaps = 6/109 (5%)
Query: 40 YASSHEWVKHEGSVAT------VGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESV 93
Y + HEW+ AT VGIT A + LG++VFV+LPE G +V G G VES
Sbjct: 16 YTADHEWIDIAPGAATPDGPVRVGITSVAVEALGDLVFVQLPEVGETVSAGESCGEVEST 75
Query: 94 KATSDVNSPISGEVIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDL 142
K SD+ +P SG+++EVNT + P + + PY GWL V+P++ +L
Sbjct: 76 KTVSDLIAPASGQIVEVNTAAVDDPATIATDPYGAGWLYSVQPTAVGEL 124
>pdb|3CNL|A Chain A, Crystal Structure Of Gnp-Bound Ylqf From T. Maritima
pdb|3CNN|A Chain A, Gtp-Bound Structure Of Tm Ylqf
pdb|3CNO|A Chain A, Gdp-Bound Structue Of Tm Ylqf
Length = 262
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 26/110 (23%), Positives = 47/110 (42%), Gaps = 3/110 (2%)
Query: 49 HEGSVATVGITDHAQDHLGEVVFVELPETGAS--VKQGGGFGVVESVKATSDVNSPISGE 106
H+G V + + D L V+ V +P TG S + + G SV A + I
Sbjct: 82 HKGEPRKVLLKKLSFDRLARVLIVGVPNTGKSTIINKLKG-KRASSVGAQPGITKGIQWF 140
Query: 107 VIEVNTKLTETPGLVNSSPYEEGWLIKVKPSSPSDLESLMDPQAYTKFCE 156
+E K+ +TPG++ + + E K+ +E + D + + + E
Sbjct: 141 SLENGVKILDTPGILYKNIFSEDLAAKLLLVGSLPVERIEDQRIFERAFE 190
>pdb|3G9H|A Chain A, Crystal Structure Of The C-Terminal Mu Homology Domain Of
Syp1
Length = 328
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 40/86 (46%), Gaps = 21/86 (24%)
Query: 34 VLDGLKYASSHEWVKHEGSVATVGITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESV 93
+ DGL +HE K + T+ TD+ V LP +GA G G+ +
Sbjct: 258 ITDGL----AHESAKGVITKFTISETDN----------VALPHSGA------GSGITLTC 297
Query: 94 KATSDVNSPISGEVIEVNTKLTETPG 119
+ D N+P GE ++VNTK T T G
Sbjct: 298 QEL-DENNPFGGEWLDVNTKRTLTTG 322
>pdb|1D8H|A Chain A, X-Ray Crystal Structure Of Yeast Rna Triphosphatase In
Complex With Sulfate And Manganese Ions.
pdb|1D8H|B Chain B, X-Ray Crystal Structure Of Yeast Rna Triphosphatase In
Complex With Sulfate And Manganese Ions.
pdb|1D8H|C Chain C, X-Ray Crystal Structure Of Yeast Rna Triphosphatase In
Complex With Sulfate And Manganese Ions.
pdb|1D8I|A Chain A, X-Ray Crystal Structure Of Yeast Rna Triphosphatase In
Complex With A Sulfate Ion.
pdb|1D8I|B Chain B, X-Ray Crystal Structure Of Yeast Rna Triphosphatase In
Complex With A Sulfate Ion.
pdb|1D8I|C Chain C, X-Ray Crystal Structure Of Yeast Rna Triphosphatase In
Complex With A Sulfate Ion
Length = 311
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 57 GITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSDVNSPISGEVI--EVNTKL 114
+T QD + ++ PE + ++ FGV+ K VN P+S + + E++ L
Sbjct: 42 DLTKSVQDWVYATIYSIAPELRSFIELEMKFGVIIDAKGPDRVNPPVSSQCVFTELDAHL 101
Query: 115 T 115
T
Sbjct: 102 T 102
>pdb|3KYH|A Chain A, Saccharomyces Cerevisiae Cet1-Ceg1 Capping Apparatus
pdb|3KYH|B Chain B, Saccharomyces Cerevisiae Cet1-Ceg1 Capping Apparatus
Length = 310
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 57 GITDHAQDHLGEVVFVELPETGASVKQGGGFGVVESVKATSDVNSPISGEVI--EVNTKL 114
+T QD + ++ PE + ++ FGV+ K VN P+S + + E++ L
Sbjct: 41 DLTKSVQDWVYATIYSIAPELRSFIELEMKFGVIIDAKGPDRVNPPVSSQCVFTELDAHL 100
Query: 115 T 115
T
Sbjct: 101 T 101
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
0.311 0.126 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,857,253
Number of Sequences: 62578
Number of extensions: 189704
Number of successful extensions: 350
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 27
length of query: 162
length of database: 14,973,337
effective HSP length: 91
effective length of query: 71
effective length of database: 9,278,739
effective search space: 658790469
effective search space used: 658790469
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: 47 (22.7 bits)