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= 035555
(767 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 90/361 (24%), Positives = 150/361 (41%), Gaps = 64/361 (17%)
Query: 106 KSELVNRLLCESSKEQKGPCVISLVGMGGIGKTTLAQFAYNN------------------ 147
+ +LVN + + SK + P +++ GM G GK+ LA A +
Sbjct: 129 RKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG 188
Query: 148 -DDVKKILRKEYGIARAIIEALTYSSS---NFVEFQSLMQ--HIQKHVAGKKLLLVLDDV 201
D +L K + + + ++S N E + ++ ++KH + LL+LDDV
Sbjct: 189 KQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKH---PRSLLILDDV 245
Query: 202 WNEDFYKWEQFYNCLKTCLHGSKILITTRKETVA-RIMGSADIISVNVLSETECWLVFES 260
W+ W LK +IL+TTR ++V +MG ++ V E L S
Sbjct: 246 WD----SW-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILS 296
Query: 261 LGFSGKSMEERENLEKIGREIIRKCKGLPLVAKTIASLLRSKNTE-----KEWQNXXXXX 315
L + K + +L + II++CKG PLV I +LLR K+ QN
Sbjct: 297 LFVNMK----KADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKR 352
Query: 316 XXXXXXXXKNLL-APLLLSYNELPSKVKQCFTYCAIFPKNSKIWKDKLIELWMAQGFLNN 374
L + +S L +K +T +I K+ K+ L LW +
Sbjct: 353 IRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW-------D 405
Query: 375 KRSKEMEEIGEEYFNILASRSFFQDFERGYDGKIYQCKVHDIVHDFAQFLCRKECLMVEI 434
++E+E+I +E+ N F D +GK ++ +HD+ D FL K C ++
Sbjct: 406 METEEVEDILQEFVN---KSLLFCD----RNGKSFRYYLHDLQVD---FLTEKNCSQLQD 455
Query: 435 L 435
L
Sbjct: 456 L 456
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 55.1 bits (131), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 90/361 (24%), Positives = 150/361 (41%), Gaps = 64/361 (17%)
Query: 106 KSELVNRLLCESSKEQKGPCVISLVGMGGIGKTTLAQFAYNN------------------ 147
+ +LVN + + SK + P +++ GM G GK+ LA A +
Sbjct: 135 RKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVG 194
Query: 148 -DDVKKILRKEYGIARAIIEALTYSSS---NFVEFQSLMQ--HIQKHVAGKKLLLVLDDV 201
D +L K + + + ++S N E + ++ ++KH + LL+LDDV
Sbjct: 195 KQDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKH---PRSLLILDDV 251
Query: 202 WNEDFYKWEQFYNCLKTCLHGSKILITTRKETVA-RIMGSADIISVNVLSETECWLVFES 260
W+ W LK +IL+TTR ++V +MG ++ V E L S
Sbjct: 252 WD----SW-----VLKAFDSQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILS 302
Query: 261 LGFSGKSMEERENLEKIGREIIRKCKGLPLVAKTIASLLRSKNTE-----KEWQNXXXXX 315
L + K + +L + II++CKG PLV I +LLR K+ QN
Sbjct: 303 LFVNMK----KADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKR 358
Query: 316 XXXXXXXXKNLL-APLLLSYNELPSKVKQCFTYCAIFPKNSKIWKDKLIELWMAQGFLNN 374
L + +S L +K +T +I K+ K+ L LW +
Sbjct: 359 IRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILW-------D 411
Query: 375 KRSKEMEEIGEEYFNILASRSFFQDFERGYDGKIYQCKVHDIVHDFAQFLCRKECLMVEI 434
++E+E+I +E+ N F D +GK ++ +HD+ D FL K C ++
Sbjct: 412 METEEVEDILQEFVN---KSLLFCD----RNGKSFRYYLHDLQVD---FLTEKNCSQLQD 461
Query: 435 L 435
L
Sbjct: 462 L 462
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 49.7 bits (117), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 56/202 (27%), Positives = 88/202 (43%), Gaps = 27/202 (13%)
Query: 195 LLVLDDVWNEDFYKWEQFYNCLKTCLHGSKILITTRKETVA-RIMGSADIISVNVLSETE 253
LL+LDDVW+ W LK + +IL+TTR ++V +MG ++ V E
Sbjct: 239 LLILDDVWD----PW-----VLKAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289
Query: 254 CWLVFESLGFSGKSMEERENLEKIGREIIRKCKGLPLVAKTIASLLRSKNTE-----KEW 308
L SL + K +E+L II++CKG PLV I +LLR ++
Sbjct: 290 KGLEILSLFVNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQL 345
Query: 309 QNXXXXXXXXXXXXXKNLL-APLLLSYNELPSKVKQCFTYCAIFPKNSKIWKDKLIELWM 367
QN L + +S L +K +T +I K+ K+ L LW
Sbjct: 346 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW- 404
Query: 368 AQGFLNNKRSKEMEEIGEEYFN 389
+ ++E+E+I +E+ N
Sbjct: 405 ------DLETEEVEDILQEFVN 420
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 62/236 (26%), Positives = 100/236 (42%), Gaps = 40/236 (16%)
Query: 195 LLVLDDVWNEDFYKWEQFYNCLKTCLHGSKILITTRKETVA-RIMGSADIISVNVLSETE 253
LL+LDDVW+ W LK + +IL+TT ++V +MG ++ V E
Sbjct: 246 LLILDDVWD----PW-----VLKAFDNQCQILLTTSDKSVTDSVMGPKHVVPVESGLGRE 296
Query: 254 CWLVFESLGFSGKSMEERENLEKIGREIIRKCKGLPLVAKTIASLLRSKNTE-----KEW 308
L SL + K +E+L II++CKG PLV I +LLR ++
Sbjct: 297 KGLEILSLFVNMK----KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQL 352
Query: 309 QNXXXXXXXXXXXXXKNLL-APLLLSYNELPSKVKQCFTYCAIFPKNSKIWKDKLIELWM 367
QN L + +S L +K +T +I K+ K+ L LW
Sbjct: 353 QNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW- 411
Query: 368 AQGFLNNKRSKEMEEIGEEYFN---ILASRSFFQDFERGYDGKIYQCKVHDIVHDF 420
+ ++E+E+I +E+ N + +R +GK + +HD+ DF
Sbjct: 412 ------DLETEEVEDILQEFVNKSLLFCNR----------NGKSFCYYLHDLQVDF 451
>pdb|1KH1|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH1|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH1|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH1|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase
pdb|1KH2|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KH2|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KH2|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KH2|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp
pdb|1KOR|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1KOR|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1KOR|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1KOR|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitors
pdb|1J1Z|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J1Z|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J1Z|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J1Z|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Substrate
pdb|1J20|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J20|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J20|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J20|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Product
pdb|1J21|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1J21|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1J21|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1J21|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Atp And
Citrulline
pdb|1KH3|A Chain A, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
pdb|1KH3|B Chain B, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
pdb|1KH3|C Chain C, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
pdb|1KH3|D Chain D, Crystal Structure Of Thermus Thermophilus Hb8
Argininosuccinate Synthetase In Complex With Inhibitor
Length = 400
Score = 32.3 bits (72), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 30/52 (57%), Gaps = 9/52 (17%)
Query: 628 NCEQLLPLGKLQSLEYLQIGGMHGVKRVG---NEFLGVES----DTNGSSVI 672
N E+L P LQ L +IGG HGV RV N F+G++S +T G +++
Sbjct: 229 NGERLSPAALLQRLN--EIGGRHGVGRVDIVENRFVGMKSRGVYETPGGTIL 278
>pdb|4AY8|A Chain A, Semet-Derivative Of A Methyltransferase From M. Mazei
pdb|4AY8|B Chain B, Semet-Derivative Of A Methyltransferase From M. Mazei
Length = 348
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 14/94 (14%)
Query: 190 AGKKLLLVLDDVWNEDFYKWEQFYNCLKTCLHGSKILITTRKETVARIMGSADIISVNVL 249
AG ++ + D V + D + F LK+ L K + TV I G+ + I L
Sbjct: 202 AGADVIAIADPVASPDLXSPDSFRQFLKSRLQ--KFASSVNSVTVLHICGNVNPI----L 255
Query: 250 SE-TECWLVFESLGFSGKSMEERENLEKIGREII 282
S+ +C GF G S+EE+ K G+E+I
Sbjct: 256 SDXADC-------GFEGLSVEEKIGSAKKGKEVI 282
>pdb|4AY7|A Chain A, Methyltransferase From Methanosarcina Mazei
pdb|4AY7|B Chain B, Methyltransferase From Methanosarcina Mazei
Length = 348
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 43/94 (45%), Gaps = 14/94 (14%)
Query: 190 AGKKLLLVLDDVWNEDFYKWEQFYNCLKTCLHGSKILITTRKETVARIMGSADIISVNVL 249
AG ++ + D V + D + F LK+ L K + TV I G+ + I L
Sbjct: 202 AGADVIAIADPVASPDLMSPDSFRQFLKSRLQ--KFASSVNSVTVLHICGNVNPI----L 255
Query: 250 SE-TECWLVFESLGFSGKSMEERENLEKIGREII 282
S+ +C GF G S+EE+ K G+E+I
Sbjct: 256 SDMADC-------GFEGLSVEEKIGSAKKGKEVI 282
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 31.6 bits (70), Expect = 1.8, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 451 CDNYIKEIPTNIEKLIHLKYLNLSSQKKIKRLP 483
C N + E+P IE+L HL +L L Q ++K +P
Sbjct: 120 CCNKLTELPRGIERLTHLTHLAL-DQNQLKSIP 151
>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
pdb|2V3C|D Chain D, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
Length = 432
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 16/90 (17%)
Query: 108 ELVNRLLCESSKE----QKGPCVISLVGMGGIGKTTLAQFAYNNDDVKKILR--KEYGIA 161
ELV +LL E +K+ K VI LVG+ G GKTT A K+ R ++ G+
Sbjct: 80 ELV-KLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAA---------KLARYIQKRGLK 129
Query: 162 RAIIEALTYSSSNFVEFQSLMQHIQKHVAG 191
A+I A TY + + + + L + I + G
Sbjct: 130 PALIAADTYRPAAYEQLKQLAEKIHVPIYG 159
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal
Recognition Particle
Length = 454
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 16/90 (17%)
Query: 108 ELVNRLLCESSKE----QKGPCVISLVGMGGIGKTTLAQFAYNNDDVKKILR--KEYGIA 161
ELV +LL E +K+ K VI LVG+ G GKTT A K+ R ++ G+
Sbjct: 80 ELV-KLLGEEAKKLELNPKKQNVILLVGIQGSGKTTTAA---------KLARYIQKRGLK 129
Query: 162 RAIIEALTYSSSNFVEFQSLMQHIQKHVAG 191
A+I A TY + + + + L + I + G
Sbjct: 130 PALIAADTYRPAAYEQLKQLAEKIHVPIYG 159
>pdb|1A6D|B Chain B, Thermosome From T. Acidophilum
pdb|1A6E|B Chain B, Thermosome-Mg-Adp-Alf3 Complex
Length = 543
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 37/166 (22%), Positives = 73/166 (43%), Gaps = 21/166 (12%)
Query: 565 ILLRECRIH-GLGDVSDVGEAR----RAELEKKKNLFDLELRFDCNVIPKNWIMSLTNLR 619
I++ + ++H G+ DV V +A+ A LE KK FD LR + + + ++ N+
Sbjct: 217 IIVDKEKVHPGMPDV--VKDAKIALLDAPLEIKKPEFDTNLRIEDPSMIQKFLAQEENML 274
Query: 620 YLSLSLFKNCEQLLPLGKL----QSLEYLQIGGMHGVKRVGNEFLGVESDTNGSSVIAFP 675
+ K+ + + + + YL G++ V+RV + + G+S++
Sbjct: 275 REMVDKIKSVGANVVITQKGIDDMAQHYLSRAGIYAVRRVKKSDMDKLAKATGASIV--- 331
Query: 676 KLRELKFSYMEELEEWDFGTATKGEIIIMPRLSCLIIFGCFKLKAL 721
S ++E+ D GTA + E + + + GC KA+
Sbjct: 332 -------STIDEISSSDLGTAERVEQVKVGEDYMTFVTGCKNPKAV 370
>pdb|2WPV|A Chain A, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|C Chain C, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|E Chain E, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
pdb|2WPV|G Chain G, Crystal Structure Of S. Cerevisiae Get4-Get5 Complex
Length = 312
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 31/52 (59%), Gaps = 4/52 (7%)
Query: 359 KDKLIELWMAQGFLNNKRS--KEMEEIGEEYFNILASR--SFFQDFERGYDG 406
KDK L + +L+ ++ E+E +G+EYFNI+A + +F QD G+ G
Sbjct: 258 KDKSYFLNLKNHYLDFSQAYKSELEFLGQEYFNIVAPKQTNFLQDMMSGFLG 309
>pdb|3GAC|A Chain A, Structure Of Mif With Hpp
pdb|3GAC|B Chain B, Structure Of Mif With Hpp
pdb|3GAC|C Chain C, Structure Of Mif With Hpp
pdb|3GAC|D Chain D, Structure Of Mif With Hpp
pdb|3GAC|E Chain E, Structure Of Mif With Hpp
pdb|3GAC|F Chain F, Structure Of Mif With Hpp
pdb|3GAD|A Chain A, Structure Of Apomif
pdb|3GAD|B Chain B, Structure Of Apomif
pdb|3GAD|C Chain C, Structure Of Apomif
pdb|3GAD|D Chain D, Structure Of Apomif
pdb|3GAD|E Chain E, Structure Of Apomif
pdb|3GAD|F Chain F, Structure Of Apomif
Length = 117
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 5/67 (7%)
Query: 118 SKEQKGPCVISLVGMGGIGKTTLAQFAYNNDDVKKILRKEYGIA--RAIIEALTYSSSNF 175
S +G C + L +GGI ++ + A D + KIL G+ R IE S+ NF
Sbjct: 51 SGSNEGYCFVRLTSIGGINRSNNSSLA---DKITKILSNHLGVKPRRVYIEFRDCSAQNF 107
Query: 176 VEFQSLM 182
SL
Sbjct: 108 AFSGSLF 114
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 45/92 (48%), Gaps = 7/92 (7%)
Query: 455 IKEIPTNIEKLIHLKYLNLSSQKKIKRLPETLCELYNLECLAISFCTNLRQLPQ---GIG 511
I+ +P +I L +LK L + + + L + L LE L + CT LR P G
Sbjct: 195 IRSLPASIANLQNLKSLKIRN-SPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRA 253
Query: 512 KLRKLMYLDNDYTNSLRYLPVGIRELIRLRRV 543
L++L+ D ++L LP+ I L +L ++
Sbjct: 254 PLKRLILKD---CSNLLTLPLDIHRLTQLEKL 282
>pdb|2JQD|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of Lanp
Length = 169
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 28/63 (44%), Positives = 37/63 (58%), Gaps = 6/63 (9%)
Query: 463 EKLIHLKYLNLSSQKKIKRLP--ETLCELYNLECLAISFC--TNLRQLPQGIGK-LRKLM 517
EK +LK+LNLS KIK L E L +L NL+ L + C TNL + + K L ++M
Sbjct: 90 EKCPNLKHLNLSGN-KIKDLSTIEPLKKLENLKSLDLFNCEVTNLNAYRENVFKLLPQVM 148
Query: 518 YLD 520
YLD
Sbjct: 149 YLD 151
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 11/50 (22%)
Query: 97 SEIFGREKEKSELVNRLLCESSKEQKGPCVISLVGMGGIGKTTLA-QFAY 145
S +FG +KE + +++ P VI LVG+ G GKTT A + AY
Sbjct: 81 SNLFGGDKEPKVIPDKI----------PYVIMLVGVQGTGKTTTAGKLAY 120
>pdb|2QY9|A Chain A, Structure Of The Ng+1 Construct Of The E. Coli Srp
Receptor Ftsy
Length = 309
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 95 DESEIFGREKEK-SELVNRLLCESSKEQKGPCVISLVGMGGIGKTT 139
D ++G KE+ E++ ++ + E K P VI +VG+ G+GKTT
Sbjct: 69 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT 114
>pdb|2XXA|B Chain B, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
pdb|2XXA|D Chain D, The Crystal Structure Of The Signal Recognition Particle
(Srp) In Complex With Its Receptor(Sr)
Length = 302
Score = 29.3 bits (64), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 95 DESEIFGREKEK-SELVNRLLCESSKEQKGPCVISLVGMGGIGKTT 139
D ++G KE+ E++ ++ + E K P VI +VG+ G+GKTT
Sbjct: 68 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT 113
>pdb|1FTS|A Chain A, Signal Recognition Particle Receptor From E. Coli
Length = 295
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 95 DESEIFGREKEK-SELVNRLLCESSKEQKGPCVISLVGMGGIGKTT 139
D ++G KE+ E++ ++ + E K P VI +VG+ G+GKTT
Sbjct: 63 DAEALYGLLKEEMGEILAKVDEPLNVEGKAPFVILMVGVNGVGKTT 108
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
0.322 0.139 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,932,762
Number of Sequences: 62578
Number of extensions: 879549
Number of successful extensions: 2432
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 2404
Number of HSP's gapped (non-prelim): 40
length of query: 767
length of database: 14,973,337
effective HSP length: 106
effective length of query: 661
effective length of database: 8,340,069
effective search space: 5512785609
effective search space used: 5512785609
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: 55 (25.8 bits)