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= 022938
(289 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 = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 52/87 (59%), Gaps = 10/87 (11%)
Query: 183 SSRVNVEDIFVGR-----DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGD 237
+++ V ++ G+ YGAF+ L GLVH+SEV+ ++DI + L+ GD
Sbjct: 2 AAKFEVGSVYTGKVTGLQAYGAFVALD-----EETQGLVHISEVTHGFVKDINEHLSVGD 56
Query: 238 EVRVKVIKIDREKSRITLSIKQLEEDP 264
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 = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/68 (38%), Positives = 43/68 (63%), Gaps = 3/68 (4%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
DYG+++ L D L + SEVS +++IRD+L E +V VKVI++DR K + +
Sbjct: 24 DYGSYVSL---DEYGGLQAFLPWSEVSSKWVKNIRDVLKENRKVIVKVIRVDRRKGTVDV 80
Query: 256 SIKQLEED 263
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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 40/65 (61%), Gaps = 3/65 (4%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
+YGAF+ L D +H+SEV+ +++IRD L EG +V KVI++D K I L
Sbjct: 24 NYGAFLEL---DEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRVDPRKGHIDL 80
Query: 256 SIKQL 260
S++++
Sbjct: 81 SLRRV 85
>pdb|1YZ6|A Chain A, Crystal Structure Of Intact Alpha Subunit Of Aif2 From
Pyrococcus Abyssi
Length = 274
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 40/65 (61%), Gaps = 3/65 (4%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
+YGAF+ L D +H+SEV+ +++IRD L EG +V KVI++D K I L
Sbjct: 23 NYGAFLEL---DEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRVDPRKGHIDL 79
Query: 256 SIKQL 260
S++++
Sbjct: 80 SLRRV 84
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 49/85 (57%), Gaps = 11/85 (12%)
Query: 183 SSRVNVEDIFVGR-----DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGD 237
++ + V ++ G+ D+GAF+ + GLVH+S+++ ++ + D L G
Sbjct: 622 TAEIEVGRVYTGKVTRIVDFGAFVAIGGGK-----EGLVHISQIADKRVEKVTDYLQMGQ 676
Query: 238 EVRVKVIKIDREKSRITLSIKQLEE 262
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 = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 41/63 (65%), Gaps = 5/63 (7%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
++GAF+ + H GLVH+S +S ++D +++ GD V+VKV+++D ++R+ L
Sbjct: 667 NFGAFVDIGV-----HQDGLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRVGL 721
Query: 256 SIK 258
S++
Sbjct: 722 SMR 724
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 41/63 (65%), Gaps = 5/63 (7%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
++GAF+ + H GLVH+S +S ++D +++ GD V+VKV+++D ++R+ L
Sbjct: 668 NFGAFVDIGV-----HQDGLVHISALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRVGL 722
Query: 256 SIK 258
S++
Sbjct: 723 SMR 725
>pdb|1SRO|A Chain A, S1 Rna Binding Domain, Nmr, 20 Structures
Length = 76
Score = 45.1 bits (105), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/81 (33%), Positives = 47/81 (58%), Gaps = 11/81 (13%)
Query: 184 SRVNVEDIFVGR-----DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDE 238
+ + V ++ G+ D+GAF+ + GLVH+S+++ ++ + D L G E
Sbjct: 1 AEIEVGRVYTGKVTRIVDFGAFVAIGGGK-----EGLVHISQIADKRVEKVTDYLQMGQE 55
Query: 239 VRVKVIKIDREKSRITLSIKQ 259
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: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 6/68 (8%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
D+GAF++ GLVHVS++S + + D+L EG V+VK++ D ++ + L
Sbjct: 641 DFGAFVNF-----FGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD-DRGKTKL 694
Query: 256 SIKQLEED 263
S+K ++++
Sbjct: 695 SMKVVDQE 702
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 6/68 (8%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
D+GAF++ GLVHVS++S + + D+L EG V+VK++ D ++ + L
Sbjct: 650 DFGAFVNF-----FGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD-DRGKTKL 703
Query: 256 SIKQLEED 263
S+K ++++
Sbjct: 704 SMKVVDQE 711
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 41/68 (60%), Gaps = 6/68 (8%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
D+GAF++ GLVHVS++S + + D+L EG V+VK++ D ++ + L
Sbjct: 650 DFGAFVNF-----FGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD-DRGKTKL 703
Query: 256 SIKQLEED 263
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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 5/65 (7%)
Query: 198 GAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITLSI 257
GA + L DG+ G + SE S D ++D +L+ GDEV K +DR+ I+LS+
Sbjct: 46 GATVEL--ADGV---EGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVDRKNRAISLSV 100
Query: 258 KQLEE 262
+ +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 = 0.014, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 45/75 (60%), Gaps = 6/75 (8%)
Query: 186 VNVEDIFVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIK 245
VNV I ++ GA++ L + ++ G++H+SE+S I+ I ++ G VKVI+
Sbjct: 19 VNVRSI---QEMGAYVSLLEYN---NIEGMIHLSELSRRRIRSINKLIRIGRNECVKVIR 72
Query: 246 IDREKSRITLSIKQL 260
+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 = 0.086, Method: Compositional matrix adjust.
Identities = 30/77 (38%), Positives = 46/77 (59%), Gaps = 8/77 (10%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIR--DILNEGDEVRVKVIKIDREKSRI 253
DYG F+ + +G+ GLVHVSE+ W ++I ++N GD V V V+ ID E+ RI
Sbjct: 43 DYGCFVEIE--EGV---EGLVHVSEMDW-TNKNIHPSKVVNVGDVVEVMVLDIDEERRRI 96
Query: 254 TLSIKQLEEDPLLETLE 270
+L +KQ + +P + E
Sbjct: 97 SLGLKQCKANPWQQFAE 113
>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 = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 15/85 (17%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDI------RDILNEGDEVRVKVIKIDRE 249
+YG F++L DGL H++ + + +D ++ I + ++ +GD+VR +VI +
Sbjct: 94 NYGVFVNLGPMDGLVHISQITD-DTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVAST 152
Query: 250 KS----RITLSIKQLEEDPLLETLE 270
+ RI L+++Q P L LE
Sbjct: 153 VTGRLPRIALTMRQ----PYLGKLE 173
>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 = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 186 VNVEDIFVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIK 245
VNV+ I + GA++ L D ++ G++ +SE+S I+ I+ ++ G V++
Sbjct: 21 VNVQQI---AEMGAYVKLLEYD---NIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLR 74
Query: 246 IDREKSRITLSIKQLEEDPLLETLEK 271
+D+EK I LS +++ + +++ EK
Sbjct: 75 VDKEKGYIDLSKRRVSSEDIIKCEEK 100
>pdb|1Q46|A Chain A, Crystal Structure Of The Eif2 Alpha Subunit From
Saccharomyces Cerevisia
Length = 175
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 49/86 (56%), Gaps = 6/86 (6%)
Query: 186 VNVEDIFVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIK 245
VNV+ I + GA++ L D ++ G++ +SE+S I+ I+ ++ G V++
Sbjct: 21 VNVQQI---AEMGAYVKLLEYD---NIEGMILLSELSRRRIRSIQKLIRVGKNDVAVVLR 74
Query: 246 IDREKSRITLSIKQLEEDPLLETLEK 271
+D+EK I LS +++ + +++ EK
Sbjct: 75 VDKEKGYIDLSKRRVSSEDIIKCEEK 100
>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 = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 15/85 (17%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDI------RDILNEGDEVRVKVIKIDRE 249
+YG F++L DGL H++ + + +D ++ I + ++ +GD+VR +VI +
Sbjct: 94 NYGIFVNLGPMDGLVHISQITD-DTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVAST 152
Query: 250 KS----RITLSIKQLEEDPLLETLE 270
+ 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 = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 45/85 (52%), Gaps = 15/85 (17%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDI------RDILNEGDEVRVKVIKIDRE 249
+YG F++L DGL H++ + + +D ++ I + ++ +GD+VR +VI +
Sbjct: 94 NYGIFVNLGPMDGLVHISQITD-DTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVAST 152
Query: 250 KS----RITLSIKQLEEDPLLETLE 270
+ RI L+++Q P L LE
Sbjct: 153 VTGRLPRIALTMRQ----PYLGKLE 173
>pdb|2CQO|A Chain A, Solution Structure Of The S1 Rna Binding Domain Of Human
Hypothetical Protein Flj11067
Length = 119
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITL 255
DYGAFI + P GLVH + +S + +I++ GD+V VK+I + + RI +
Sbjct: 35 DYGAFI--KIPG--CRKQGLVHRTHMSSCRVDKPSEIVDVGDKVWVKLIGREMKNDRIKV 90
Query: 256 SI 257
S+
Sbjct: 91 SL 92
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 38/63 (60%), Gaps = 8/63 (12%)
Query: 197 YGAFIHLRFP--DGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRIT 254
+GAF+ L P DGL H++ + ++ ++++ D+L G +V+V++ +ID SR
Sbjct: 681 FGAFVSL-LPGKDGLLHISQIRKLA--GGKRVENVEDVLGVGQKVQVEIAEID---SRGK 734
Query: 255 LSI 257
LS+
Sbjct: 735 LSL 737
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 30.8 bits (68), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 38/63 (60%), Gaps = 8/63 (12%)
Query: 197 YGAFIHLRFP--DGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRIT 254
+GAF+ L P DGL H++ + ++ ++++ D+L G +V+V++ +ID SR
Sbjct: 681 FGAFVSL-LPGKDGLLHISQIRKLA--GGKRVENVEDVLGVGQKVQVEIAEID---SRGK 734
Query: 255 LSI 257
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 = 2.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%)
Query: 145 HEIAKGLTGSIISVKVIQANEEMKKLVFSEKDAVWNKYSSRVNVEDI 191
H AKG T ++++ +A E ++ L ++ DAVW + V ED+
Sbjct: 205 HAGAKGFTSGLVNLLPQKAVEMLEALRNNDNDAVWRIWEDIVPFEDL 251
>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 = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 45/86 (52%), Gaps = 16/86 (18%)
Query: 196 DYGAFIHLRFPDGLYHLTGLVHVSEVSWD------LIQDIRDILNEGDEVRVKVIKID-- 247
++G+F+ L DGL H++ ++ VS+D + ++ +L GD VR +++ I
Sbjct: 94 EFGSFVRLGPLDGLIHVSQIMD-DYVSYDPKREAIIGKETGKVLEIGDYVRARIVAISLK 152
Query: 248 ---REKSRITLSIKQLEEDPLLETLE 270
+ S+I L+++Q P L LE
Sbjct: 153 AERKRGSKIALTMRQ----PYLGKLE 174
>pdb|2ET6|A Chain A, (3r)-Hydroxyacyl-Coa Dehydrogenase Domain Of Candida
Tropicalis Peroxisomal Multifunctional Enzyme Type 2
Length = 604
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 42/95 (44%), Gaps = 8/95 (8%)
Query: 192 FVGRDYGAFIHLRFPDGLYHLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKID-REK 250
F + YG ++ P GLY G + + L+ + EG + +K I +
Sbjct: 137 FQKQKYGRIVNTSSPAGLYGNFGQANYASAKSALLGFAETLAKEGAKYNIKANAIAPLAR 196
Query: 251 SRITLSIKQLEEDPLLETL--EKVIPQGLEPYLKS 283
SR+T SI P+LE L EKV P L YL S
Sbjct: 197 SRMTESIM---PPPMLEKLGPEKVAP--LVLYLSS 226
>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 = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 156 ISVKVIQANEEMKKLVFSEKDAVWNKYSSRVNV--EDIFVGRDYGAFI 201
+S + IQ E+ + KD++ +KY S NV +DIF+G +Y F+
Sbjct: 48 VSSRTIQNXEKDSTNI---KDSLLSKYXSAFNVKYDDIFLGNEYENFV 92
>pdb|1GH6|B Chain B, Retinoblastoma Pocket Complexed With Sv40 Large T Antigen
Length = 333
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 235 EGDEVRVKVIKIDREKSRITLSIKQLEEDPLLETLE--KVIPQGLEPYLKSFYKKM 288
EG+ R + ++R + RI S+ L + PL + ++ K++P+G L FYKK+
Sbjct: 161 EGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKLVPRG-STSLSLFYKKV 215
>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 = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 124 GFLPFPQMSP---SHSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
G L P + H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 12 GHLKLPGLRTYVDPHTYEDPTQTVHEFAKELDATNISIDKVVGAGE 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 = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 124 GFLPFPQMSP---SHSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
G L P + H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 10 GHLKLPGLRTYVDPHTYEDPTQTVHEFAKELDATNISIDKVVGAGE 55
>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 = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 124 GFLPFPQMSP---SHSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
G L P + H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 12 GHLKLPGLRTYVDPHTYEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOF|A Chain A, Human Epha3 Kinase And Juxtamembrane Region, Y596f Mutant
Length = 373
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 124 GFLPFPQMSP---SHSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
G L P + H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 12 GHLKLPGLRTFVDPHTYEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOD|A Chain A, Human Epha3 Kinase And Juxtamembrane Region, Y602f Mutant
Length = 373
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 124 GFLPFPQMSP---SHSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
G L P + H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 12 GHLKLPGLRTYVDPHTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOK|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596f:y602f:s768a Triple Mutant
Length = 373
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%), Gaps = 4/46 (8%)
Query: 124 GFLPFPQMSP---SHSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
G L P + H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 12 GHLKLPGLRTFVDPHTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QOO|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596f:y602f:y742f Triple Mutant
Length = 373
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 135 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
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 = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 135 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
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 = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 135 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>pdb|2QON|A Chain A, Human Epha3 Kinase And Juxtamembrane Region,
Y596f:y602f:y742a Triple Mutant
Length = 373
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 22/32 (68%), Gaps = 1/32 (3%)
Query: 135 HSCKEPQKSIHEIAKGLTGSIISV-KVIQANE 165
H+ ++P +++HE AK L + IS+ KV+ A E
Sbjct: 26 HTFEDPTQTVHEFAKELDATNISIDKVVGAGE 57
>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 = 8.0, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 235 EGDEVRVKVIKIDREKSRITLSIKQLEEDPLLETLE--KVIPQGLEPY-LKSFYKKM 288
EG+ R + ++R + RI S+ L + PL + ++ K++P+G + L FYKK+
Sbjct: 163 EGNLTREMIKHLERCEHRIMESLAWLSDSPLFDLIKQSKLVPRGSKSTSLSLFYKKV 219
>pdb|1Q77|A Chain A, X-ray Crystal Structure Of Putative Universal Stress
Protein From Aquifex Aeolicus
pdb|1Q77|B Chain B, X-ray Crystal Structure Of Putative Universal Stress
Protein From Aquifex Aeolicus
Length = 138
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 126 LPFPQMSPSHSCKEPQKSIHEIAKGLTGSI----ISVKVIQANEEMKKLVFSE--KDAVW 179
LPFP S K ++ + E+ + LTGS + ++ +EE+KK V + + VW
Sbjct: 56 LPFPPEIKEESKKRIERRLREVWEKLTGSTEIPGVEYRIGPLSEEVKKFVEGKGYELVVW 115
Query: 180 NKYSS 184
Y S
Sbjct: 116 ACYPS 120
>pdb|1KL9|A Chain A, Crystal Structure Of The N-Terminal Segment Of Human
Eukaryotic Initiation Factor 2alpha
Length = 182
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 30/50 (60%)
Query: 211 HLTGLVHVSEVSWDLIQDIRDILNEGDEVRVKVIKIDREKSRITLSIKQL 260
++ G + +SE+S I+ I ++ G V VI++D+EK I LS +++
Sbjct: 40 NIEGXILLSELSRRRIRSINKLIRIGRNECVVVIRVDKEKGYIDLSKRRV 89
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
0.319 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,120,678
Number of Sequences: 62578
Number of extensions: 326479
Number of successful extensions: 832
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 804
Number of HSP's gapped (non-prelim): 54
length of query: 289
length of database: 14,973,337
effective HSP length: 98
effective length of query: 191
effective length of database: 8,840,693
effective search space: 1688572363
effective search space used: 1688572363
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)