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= 026737
(234 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2K4K|A Chain A, Solution Structure Of Gsp13 From Bacillus Subtilis
Length = 130
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 52/87 (59%), Gaps = 10/87 (11%)
Query: 53 SSRVNVEDIFVGR-----DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGD 107
+++ V ++ G+ YGAF+ L GLVH+SEV+ ++DI + L+ GD
Sbjct: 2 AAKFEVGSVYTGKVTGLQAYGAFVALD-----EETQGLVHISEVTHGFVKDINEHLSVGD 56
Query: 108 EVRVKVIKIDREKSRITLSIKQLEEDP 134
EV+VKV+ +D EK +I+LSI+ + P
Sbjct: 57 EVQVKVLAVDEEKGKISLSIRATQAAP 83
>pdb|2AHO|B Chain B, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
Gamma Heterodimer From Sulfolobus Solfataricus Complexed
With Gdpnp
pdb|3CW2|C Chain C, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|D Chain D, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|G Chain G, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|H Chain H, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3V11|B Chain B, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 266
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 43/68 (63%), Gaps = 3/68 (4%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
DYG+++ L D L + SEVS +++IRD+L E +V VKVI++DR K + +
Sbjct: 24 DYGSYVSL---DEYGGLQAFLPWSEVSSKWVKNIRDVLKENRKVIVKVIRVDRRKGTVDV 80
Query: 126 SIKQLEED 133
S+K++ +D
Sbjct: 81 SLKKVTDD 88
>pdb|3AEV|A Chain A, Crystal Structure Of AEIF2ALPHA-Adim2p-Rrna Complex From
Pyrococcus Horikoshii Ot3
Length = 275
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 40/65 (61%), Gaps = 3/65 (4%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
+YGAF+ L D +H+SEV+ +++IRD L EG +V KVI++D K I L
Sbjct: 24 NYGAFLEL---DEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRVDPRKGHIDL 80
Query: 126 SIKQL 130
S++++
Sbjct: 81 SLRRV 85
>pdb|1YZ6|A Chain A, Crystal Structure Of Intact Alpha Subunit Of Aif2 From
Pyrococcus Abyssi
Length = 274
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 40/65 (61%), Gaps = 3/65 (4%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
+YGAF+ L D +H+SEV+ +++IRD L EG +V KVI++D K I L
Sbjct: 23 NYGAFLEL---DEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRVDPRKGHIDL 79
Query: 126 SIKQL 130
S++++
Sbjct: 80 SLRRV 84
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 46.2 bits (108), Expect = 2e-05, Method: Composition-based stats.
Identities = 28/85 (32%), Positives = 49/85 (57%), Gaps = 11/85 (12%)
Query: 53 SSRVNVEDIFVGR-----DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGD 107
++ + V ++ G+ D+GAF+ + GLVH+S+++ ++ + D L G
Sbjct: 622 TAEIEVGRVYTGKVTRIVDFGAFVAIGGGK-----EGLVHISQIADKRVEKVTDYLQMGQ 676
Query: 108 EVRVKVIKIDREKSRITLSIKQLEE 132
EV VKV+++DR+ RI LSIK+ E
Sbjct: 677 EVPVKVLEVDRQ-GRIRLSIKEATE 700
>pdb|3BZC|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form I
pdb|3BZK|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form 2
Length = 785
Score = 44.7 bits (104), Expect = 4e-05, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 41/63 (65%), Gaps = 5/63 (7%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
++GAF+ + H GLVH+S +S ++D +++ GD V+VKV+++D ++R+ L
Sbjct: 667 NFGAFVDIGV-----HQDGLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRVGL 721
Query: 126 SIK 128
S++
Sbjct: 722 SMR 724
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 44.7 bits (104), Expect = 5e-05, Method: Composition-based stats.
Identities = 21/63 (33%), Positives = 41/63 (65%), Gaps = 5/63 (7%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
++GAF+ + H GLVH+S +S ++D +++ GD V+VKV+++D ++R+ L
Sbjct: 668 NFGAFVDIGV-----HQDGLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRVGL 722
Query: 126 SIK 128
S++
Sbjct: 723 SMR 725
>pdb|1SRO|A Chain A, S1 Rna Binding Domain, Nmr, 20 Structures
Length = 76
Score = 43.1 bits (100), Expect = 1e-04, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 47/81 (58%), Gaps = 11/81 (13%)
Query: 54 SRVNVEDIFVGR-----DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDE 108
+ + V ++ G+ D+GAF+ + GLVH+S+++ ++ + D L G E
Sbjct: 1 AEIEVGRVYTGKVTRIVDFGAFVAIGGGK-----EGLVHISQIADKRVEKVTDYLQMGQE 55
Query: 109 VRVKVIKIDREKSRITLSIKQ 129
V VKV+++DR+ RI LSIK+
Sbjct: 56 VPVKVLEVDRQ-GRIRLSIKE 75
>pdb|4AM3|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
Length = 717
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 6/68 (8%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
D+GAF++ GLVHVS++S + + D+L EG V+VK++ D ++ + L
Sbjct: 641 DFGAFVNF-----FGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD-DRGKTKL 694
Query: 126 SIKQLEED 133
S+K ++++
Sbjct: 695 SMKVVDQE 702
>pdb|4AIM|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 6/68 (8%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
D+GAF++ GLVHVS++S + + D+L EG V+VK++ D ++ + L
Sbjct: 650 DFGAFVNF-----FGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD-DRGKTKL 703
Query: 126 SIKQLEED 133
S+K ++++
Sbjct: 704 SMKVVDQE 711
>pdb|4AID|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 6/68 (8%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
D+GAF++ GLVHVS++S + + D+L EG V+VK++ D ++ + L
Sbjct: 650 DFGAFVNF-----FGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD-DRGKTKL 703
Query: 126 SIKQLEED 133
S+K ++++
Sbjct: 704 SMKVVDQE 711
>pdb|2KHJ|A Chain A, Nmr Structure Of The Domain 6 Of The E. Coli Ribosomal
Protein S1
Length = 109
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 5/65 (7%)
Query: 68 GAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITLSI 127
GA + L DG+ G + SE S D ++D +L+ GDEV K +DR+ I+LS+
Sbjct: 46 GATVEL--ADGV---EGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVDRKNRAISLSV 100
Query: 128 KQLEE 132
+ +E
Sbjct: 101 RAKDE 105
>pdb|1Q8K|A Chain A, Solution Structure Of Alpha Subunit Of Human Eif2
Length = 308
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 45/75 (60%), Gaps = 6/75 (8%)
Query: 56 VNVEDIFVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIK 115
VNV I ++ GA++ L + ++ G++H+SE+S I+ I ++ G VKVI+
Sbjct: 19 VNVRSI---QEMGAYVSLLEYN---NIEGMIHLSELSRRRIRSINKLIRIGRNECVKVIR 72
Query: 116 IDREKSRITLSIKQL 130
+D+EK I LS +++
Sbjct: 73 VDKEKGYIDLSKRRV 87
>pdb|2KHI|A Chain A, Nmr Structure Of The Domain 4 Of The E. Coli Ribosomal
Protein S1
Length = 115
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 44/71 (61%), Gaps = 8/71 (11%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIR--DILNEGDEVRVKVIKIDREKSRI 123
DYG F+ + +G+ GLVHVSE+ W ++I ++N GD V V V+ ID E+ RI
Sbjct: 43 DYGCFVEIE--EGV---EGLVHVSEMDWT-NKNIHPSKVVNVGDVVEVMVLDIDEERRRI 96
Query: 124 TLSIKQLEEDP 134
+L +KQ + +P
Sbjct: 97 SLGLKQCKANP 107
>pdb|2Y0S|E Chain E, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|T Chain T, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|E Chain E, Rnap At 3.2ang
pdb|4B1O|E Chain E, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|T Chain T, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 180
Score = 33.9 bits (76), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 15/85 (17%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDI------RDILNEGDEVRVKVIKIDRE 119
+YG F++L DGL H++ + + +D ++ I + ++ +GD+VR +VI +
Sbjct: 94 NYGVFVNLGPMDGLVHISQITD-DTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVAST 152
Query: 120 KS----RITLSIKQLEEDPLLETLE 140
+ RI L+++Q P L LE
Sbjct: 153 VTGRLPRIALTMRQ----PYLGKLE 173
>pdb|2WAQ|E Chain E, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|E Chain E, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|T Chain T, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
Length = 180
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 15/85 (17%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDI------RDILNEGDEVRVKVIKIDRE 119
+YG F++L DGL H++ + + +D ++ I + ++ +GD+VR +VI +
Sbjct: 94 NYGIFVNLGPMDGLVHISQITD-DTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVAST 152
Query: 120 KS----RITLSIKQLEEDPLLETLE 140
+ RI L+++Q P L LE
Sbjct: 153 VTGRLPRIALTMRQ----PYLGKLE 173
>pdb|2PMZ|E Chain E, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|T Chain T, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|E Chain E, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|Q Chain Q, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 180
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 15/85 (17%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDI------RDILNEGDEVRVKVIKIDRE 119
+YG F++L DGL H++ + + +D ++ I + ++ +GD+VR +VI +
Sbjct: 94 NYGIFVNLGPMDGLVHISQITD-DTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVAST 152
Query: 120 KS----RITLSIKQLEEDPLLETLE 140
+ RI L+++Q P L LE
Sbjct: 153 VTGRLPRIALTMRQ----PYLGKLE 173
>pdb|1Q46|A Chain A, Crystal Structure Of The Eif2 Alpha Subunit From
Saccharomyces Cerevisia
Length = 175
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 56 VNVEDIFVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIK 115
VNV+ I + GA++ L D ++ G++ +SE+S I+ I+ ++ G V++
Sbjct: 21 VNVQQI---AEMGAYVKLLEYD---NIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLR 74
Query: 116 IDREKSRITLSIKQLEEDPLLETLEK 141
+D+EK I LS +++ + +++ EK
Sbjct: 75 VDKEKGYIDLSKRRVSSEDIIKCEEK 100
>pdb|2A19|A Chain A, Pkr Kinase Domain- Eif2alpha- Amp-Pnp Complex.
pdb|2A1A|A Chain A, Pkr Kinase Domain-Eif2alpha Complex
Length = 175
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 56 VNVEDIFVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIK 115
VNV+ I + GA++ L D ++ G++ +SE+S I+ I+ ++ G V++
Sbjct: 21 VNVQQI---AEMGAYVKLLEYD---NIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLR 74
Query: 116 IDREKSRITLSIKQLEEDPLLETLEK 141
+D+EK I LS +++ + +++ EK
Sbjct: 75 VDKEKGYIDLSKRRVSSEDIIKCEEK 100
>pdb|2CQO|A Chain A, Solution Structure Of The S1 Rna Binding Domain Of Human
Hypothetical Protein Flj11067
Length = 119
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 125
DYGAFI + P GLVH + +S + +I++ GD+V VK+I + + RI +
Sbjct: 35 DYGAFI--KIPG--CRKQGLVHRTHMSSCRVDKPSEIVDVGDKVWVKLIGREMKNDRIKV 90
Query: 126 SI 127
S+
Sbjct: 91 SL 92
>pdb|2ET6|A Chain A, (3r)-Hydroxyacyl-Coa Dehydrogenase Domain Of Candida
Tropicalis Peroxisomal Multifunctional Enzyme Type 2
Length = 604
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 53/109 (48%), Gaps = 9/109 (8%)
Query: 62 FVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKV-IKIDREK 120
FV + +G I++ G+Y G + S ++ + + EG + +KV I +
Sbjct: 441 FVEKQFGRIINITSTSGIYGNFGQANYSSSKAGILGLSKTMAIEGAKNNIKVNIVAPHAE 500
Query: 121 SRITLSIKQLEEDPLLETLEKVIPQGLEPYLKSFYKKMDDVRITRQGFE 169
+ +TLSI + E+D L ++V P L YL + DDV +T + FE
Sbjct: 501 TAMTLSIMR-EQDKNLYHADQVAP--LLVYLGT-----DDVPVTGETFE 541
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 42/95 (44%), Gaps = 8/95 (8%)
Query: 62 FVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDR-EK 120
F + YG ++ P GLY G + + L+ + EG + +K I +
Sbjct: 137 FQKQKYGRIVNTSSPAGLYGNFGQANYASAKSALLGFAETLAKEGAKYNIKANAIAPLAR 196
Query: 121 SRITLSIKQLEEDPLLETL--EKVIPQGLEPYLKS 153
SR+T SI P+LE L EKV P L YL S
Sbjct: 197 SRMTESIM---PPPMLEKLGPEKVAP--LVLYLSS 226
>pdb|3E38|A Chain A, Crystal Structure Of A Two-Domain Protein Containing
Predicted Php- Like Metal-Dependent Phosphoesterase
(Bvu_3505) From Bacteroides Vulgatus Atcc 8482 At 2.20 A
Resolution
pdb|3E38|B Chain B, Crystal Structure Of A Two-Domain Protein Containing
Predicted Php- Like Metal-Dependent Phosphoesterase
(Bvu_3505) From Bacteroides Vulgatus Atcc 8482 At 2.20 A
Resolution
Length = 343
Score = 30.8 bits (68), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 45/96 (46%), Gaps = 5/96 (5%)
Query: 101 DILNEGDEVRVKVIKIDREKSRITLSIKQLEEDPLLETLEKVIPQGLEPYLKSFYKKMDD 160
D+L E VK+ ++ R + +TLSI + + L+ L+K L Y + K
Sbjct: 248 DLLRPFFEKCVKIEEVSRNEQGVTLSITNVTD--LVLKLKKTAHDTLLVYFRDXTLKPHT 305
Query: 161 VRITRQGFEKRVVSQDLQLWLSN---APPSGKKFTL 193
R GF++ + D+ ++N AP G K+T+
Sbjct: 306 RYTVRIGFKQGIKGGDVNFEVTNFIVAPDKGLKYTI 341
>pdb|1GO3|E Chain E, Structure Of An Archeal Homolog Of The Eukaryotic Rna
Polymerase Ii Rpb4RPB7 COMPLEX
pdb|1GO3|M Chain M, Structure Of An Archeal Homolog Of The Eukaryotic Rna
Polymerase Ii Rpb4RPB7 COMPLEX
Length = 187
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 16/86 (18%)
Query: 66 DYGAFIHLRFPDGLYHLTGLVHVSEVSWD------LIQDIRDILNEGDEVRVKVIKID-- 117
++G+F+ L DGL H++ ++ VS+D + ++ +L GD VR +++ I
Sbjct: 94 EFGSFVRLGPLDGLIHVSQIMD-DYVSYDPKREAIIGKETGKVLEIGDYVRARIVAISLK 152
Query: 118 ---REKSRITLSIKQLEEDPLLETLE 140
+ S+I L+++Q P L LE
Sbjct: 153 AERKRGSKIALTMRQ----PYLGKLE 174
>pdb|1BR2|A Chain A, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|B Chain B, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|C Chain C, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|D Chain D, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|E Chain E, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
pdb|1BR2|F Chain F, Smooth Muscle Myosin Motor Domain Complexed With
Mgadp.Alf4
Length = 791
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 158 MDDVRITRQGFEKRVVSQDL----QLWLSNAPPSG 188
++ +RI RQGF R+V Q+ ++ +NA P G
Sbjct: 710 LEGIRICRQGFPNRIVFQEFRQRYEILAANAIPKG 744
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 158 MDDVRITRQGFEKRVVSQDL----QLWLSNAPPSG 188
++ +RI RQGF R+V Q+ ++ +NA P G
Sbjct: 710 LEGIRICRQGFPNRIVFQEFRQRYEILAANAIPKG 744
>pdb|1BR1|A Chain A, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR1|C Chain C, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR1|E Chain E, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR1|G Chain G, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Alf4 Bound At The Active Site
pdb|1BR4|A Chain A, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
pdb|1BR4|C Chain C, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
pdb|1BR4|E Chain E, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
pdb|1BR4|G Chain G, Smooth Muscle Myosin Motor Domain-Essential Light Chain
Complex With Mgadp.Bef3 Bound At The Active Site
Length = 820
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 158 MDDVRITRQGFEKRVVSQDL----QLWLSNAPPSG 188
++ +RI RQGF R+V Q+ ++ +NA P G
Sbjct: 710 LEGIRICRQGFPNRIVFQEFRQRYEILAANAIPKG 744
>pdb|3J04|A Chain A, Em Structure Of The Heavy Meromyosin Subfragment Of Chick
Smooth Muscle Myosin With Regulatory Light Chain In
Phosphorylated State
pdb|3J04|D Chain D, Em Structure Of The Heavy Meromyosin Subfragment Of Chick
Smooth Muscle Myosin With Regulatory Light Chain In
Phosphorylated State
Length = 909
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 158 MDDVRITRQGFEKRVVSQDL----QLWLSNAPPSG 188
++ +RI RQGF R+V Q+ ++ +NA P G
Sbjct: 710 LEGIRICRQGFPNRIVFQEFRQRYEILAANAIPKG 744
>pdb|3DTP|B Chain B, Tarantula Heavy Meromyosin Obtained By Flexible Docking To
Tarantula Muscle Thick Filament Cryo-Em 3d-Map
Length = 973
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 158 MDDVRITRQGFEKRVVSQDL----QLWLSNAPPSG 188
++ +RI RQGF R+V Q+ ++ +NA P G
Sbjct: 710 LEGIRICRQGFPNRIVFQEFRQRYEILAANAIPKG 744
>pdb|3DTP|A Chain A, Tarantula Heavy Meromyosin Obtained By Flexible Docking To
Tarantula Muscle Thick Filament Cryo-Em 3d-Map
Length = 971
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 158 MDDVRITRQGFEKRVVSQDL----QLWLSNAPPSG 188
++ +RI RQGF R+V Q+ ++ +NA P G
Sbjct: 710 LEGIRICRQGFPNRIVFQEFRQRYEILAANAIPKG 744
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 29.3 bits (64), Expect = 1.7, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 38/63 (60%), Gaps = 8/63 (12%)
Query: 67 YGAFIHLRFP--DGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRIT 124
+GAF+ L P DGL H++ + ++ ++++ D+L G +V+V++ +ID SR
Sbjct: 681 FGAFVSL-LPGKDGLLHISQIRKLA--GGKRVENVEDVLGVGQKVQVEIAEID---SRGK 734
Query: 125 LSI 127
LS+
Sbjct: 735 LSL 737
>pdb|3E96|A Chain A, Crystal Structure Of Dihydrodipicolinate Synthase From
Bacillus Clausii
pdb|3E96|B Chain B, Crystal Structure Of Dihydrodipicolinate Synthase From
Bacillus Clausii
Length = 316
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 15 HEIAKGLTGSIISVKVIQANEEMKKLVFSEKDAVWNKYSSRVNVEDI 61
H AKG T ++++ +A E ++ L ++ DAVW + V ED+
Sbjct: 205 HAGAKGFTSGLVNLLPQKAVEMLEALRNNDNDAVWRIWEDIVPFEDL 251
>pdb|3MLF|A Chain A, Putative Transcriptional Regulator From Staphylococcus
Aureus.
pdb|3MLF|B Chain B, Putative Transcriptional Regulator From Staphylococcus
Aureus.
pdb|3MLF|C Chain C, Putative Transcriptional Regulator From Staphylococcus
Aureus.
pdb|3MLF|D Chain D, Putative Transcriptional Regulator From Staphylococcus
Aureus.
pdb|3MLF|E Chain E, Putative Transcriptional Regulator From Staphylococcus
Aureus
Length = 111
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 26 ISVKVIQANEEMKKLVFSEKDAVWNKYSSRVNV--EDIFVGRDYGAFI 71
+S + IQ E+ + KD++ +KY S NV +DIF+G +Y F+
Sbjct: 48 VSSRTIQNXEKDSTNI---KDSLLSKYXSAFNVKYDDIFLGNEYENFV 92
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 29.3 bits (64), Expect = 2.2, Method: Composition-based stats.
Identities = 20/63 (31%), Positives = 38/63 (60%), Gaps = 8/63 (12%)
Query: 67 YGAFIHLRFP--DGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRIT 124
+GAF+ L P DGL H++ + ++ ++++ D+L G +V+V++ +ID SR
Sbjct: 681 FGAFVSL-LPGKDGLLHISQIRKLA--GGKRVENVEDVLGVGQKVQVEIAEID---SRGK 734
Query: 125 LSI 127
LS+
Sbjct: 735 LSL 737
>pdb|1GH6|B Chain B, Retinoblastoma Pocket Complexed With Sv40 Large T Antigen
Length = 333
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 105 EGDEVRVKVIKIDREKSRITLSIKQLEEDPLLETLE--KVIPQGLEPYLKSFYKKM 158
EG+ R + ++R + RI S+ L + PL + ++ K++P+G L FYKK+
Sbjct: 161 EGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKLVPRG-STSLSLFYKKV 215
>pdb|2QOO|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596f:y602f:y742f Triple Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOI|A Chain A, Human Epha3 Kinase And Juxtamembrane Region, Y596f:y602f
Double Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOL|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596:y602:s768g Triple Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOD|A Chain A, Human Epha3 Kinase And Juxtamembrane Region, Y602f
Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOK|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596f:y602f:s768a Triple Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|3FXX|A Chain A, Human Epha3 Kinase And Juxtamembrane Region Bound To
Substrate Kqwdnye[ptyr]iw
pdb|3FY2|A Chain A, Human Epha3 Kinase And Juxtamembrane Region Bound To
Substrate Kqwdnyefiw
Length = 371
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 24 HTYEDPTQTVHEFAKELDATNISIDKVVGAGE 55
>pdb|2QOF|A Chain A, Human Epha3 Kinase And Juxtamembrane Region, Y596f
Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTYEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QON|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596f:y602f:y742a Triple Mutant
Length = 373
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2GSF|A Chain A, The Human Epha3 Receptor Tyrosine Kinase And
Juxtamembrane Region
pdb|2QO2|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Dephosphorylated, Apo Structure
pdb|2QO9|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Phosphorylated, Amp-pnp Bound
Length = 373
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTYEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QO7|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Dephosphorylated, Amp-Pnp Bound
pdb|2QOQ|A Chain A, Human Epha3 Kinase And Juxtamembrane Region, Base,
Amp-Pnp Bound Structure
Length = 373
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 5 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 35
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTYEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|1KL9|A Chain A, Crystal Structure Of The N-Terminal Segment Of Human
Eukaryotic Initiation Factor 2alpha
Length = 182
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 35/61 (57%)
Query: 81 HLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITLSIKQLEEDPLLETLE 140
++ G + +SE+S I+ I ++ G V VI++D+EK I LS +++ + ++ +
Sbjct: 40 NIEGXILLSELSRRRIRSINKLIRIGRNECVVVIRVDKEKGYIDLSKRRVSPEEAIKCED 99
Query: 141 K 141
K
Sbjct: 100 K 100
>pdb|3POM|A Chain A, Crystal Structure Of The Unliganded Retinoblastoma Protein
Pocket Domain
pdb|3POM|B Chain B, Crystal Structure Of The Unliganded Retinoblastoma Protein
Pocket Domain
Length = 352
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 105 EGDEVRVKVIKIDREKSRITLSIKQLEEDPLLETLE--KVIPQGLEPY-LKSFYKKM 158
EG+ R + ++R + RI S+ L + PL + ++ K++P+G + L FYKK+
Sbjct: 163 EGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKLVPRGSKSTSLSLFYKKV 219
>pdb|3GU0|A Chain A, Promiscuous Substrate Recognition In Folding And Assembly
Activities Of The Trigger Factor Chaperone
Length = 412
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 1 MSPSHSCKEPQKSIHEIAKGLTGSIISVKVIQANEEMKKLVFSEKDAVWNKYSSRVNVED 60
+ SH+ EP++ E G ++ V + NEE KKL E + V ++ R V+D
Sbjct: 141 LRESHALLEPKEGPAE-----AGDLVRVNMEVYNEEGKKLTSREYEYVISEDEDRPFVKD 195
Query: 61 IFVGRDYGAFIHL 73
+ VG+ G + +
Sbjct: 196 L-VGKKKGDVVEI 207
>pdb|3GTY|X Chain X, Promiscuous Substrate Recognition In Folding And Assembly
Activities Of The Trigger Factor Chaperone
Length = 433
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 1 MSPSHSCKEPQKSIHEIAKGLTGSIISVKVIQANEEMKKLVFSEKDAVWNKYSSRVNVED 60
+ SH+ EP++ E G ++ V + NEE KKL E + V ++ R V+D
Sbjct: 141 LRESHALLEPKEGPAE-----AGDLVRVNMEVYNEEGKKLTSREYEYVISEDEDRPFVKD 195
Query: 61 IFVGRDYGAFIHL 73
+ VG+ G + +
Sbjct: 196 L-VGKKKGDVVEI 207
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 0.135 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,775,908
Number of Sequences: 62578
Number of extensions: 270883
Number of successful extensions: 916
Number of sequences better than 100.0: 60
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 891
Number of HSP's gapped (non-prelim): 62
length of query: 234
length of database: 14,973,337
effective HSP length: 96
effective length of query: 138
effective length of database: 8,965,849
effective search space: 1237287162
effective search space used: 1237287162
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: 50 (23.9 bits)