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= 006018
(664 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 108 bits (271), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 53/105 (50%), Positives = 69/105 (65%), Gaps = 1/105 (0%)
Query: 15 KHDVFLSFRGKDVRHNFVSHLNAALCREKIETFIDDK-LNRGNEISPSLSSAIEGSKISI 73
K+DVFLSFRG D RHNF+S L L R I TF DDK L G SP L S IE S+ ++
Sbjct: 8 KYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAV 67
Query: 74 VIFSEGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSDAGY 118
V+ SE YA+S WCL+ELV I++ + K V+P+FY V+P+ +
Sbjct: 68 VVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRW 112
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 100 bits (250), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 53/117 (45%), Positives = 76/117 (64%), Gaps = 2/117 (1%)
Query: 1 MASSSSSINMIPHPKHDVFLSFRGKDVRHNFVSHLNAALCREKIETFIDD-KLNRGNEIS 59
++ S++ P +++VFLSFRG D R F L +L R KI TF DD +L +G EI
Sbjct: 21 ISDSTNPSGSFPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIG 80
Query: 60 PSLSSAIEGSKISIVIFSEGYASSRWCLNELVKILESKNKYG-QIVVPVFYLVDPSD 115
P+L AI+ SKI + I S GYA S+WCL EL +I+ + + +I++P+FY+VDPSD
Sbjct: 81 PNLLRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSD 137
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 50.8 bits (120), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 48/171 (28%), Positives = 70/171 (40%), Gaps = 37/171 (21%)
Query: 470 EDIYQVLNENTSLPTGI-NLDSLKELYLGGCSNLKRFPEISC------------NIEDLD 516
E + N +LP I +L+ L+EL + C L PE N++ L
Sbjct: 130 ETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLR 189
Query: 517 LKETAIEELPSSIGNL-----------------------SRLVDLDLTNCSGLKSVSSRL 553
L+ T I LP+SI NL +L +LDL C+ L++
Sbjct: 190 LEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIF 249
Query: 554 CNLKSLRRLNLSGCLKLEKLPEEIGNLESLEYLNLAE-KDFEKIPSSMKQL 603
L+RL L C L LP +I L LE L+L + ++PS + QL
Sbjct: 250 GGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 49.3 bits (116), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 59/126 (46%), Gaps = 16/126 (12%)
Query: 510 CNIEDLDLKETAIEELPSSIGNLSRLVDLDLTNCSGLKSVSSRLC------------NLK 557
+E L L + LP+SI +L+RL +L + C L + L NL+
Sbjct: 127 AGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQ 186
Query: 558 SLRRLNLSGCLKLEKLPEEIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQNCKRL 617
SLR L +G + LP I NL++L+ L + + ++ L KL +L L+ C L
Sbjct: 187 SLR-LEWTG---IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTAL 242
Query: 618 QSLPEL 623
++ P +
Sbjct: 243 RNYPPI 248
Score = 37.4 bits (85), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 1/59 (1%)
Query: 570 LEKLPEEIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQNCKRLQSLPELPCGSS 628
L +LP+ LE L LA +P+S+ L++L +L ++ C L LPE P S+
Sbjct: 116 LXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPE-PLAST 173
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 28/124 (22%), Positives = 59/124 (47%), Gaps = 3/124 (2%)
Query: 2 ASSSSSINMIPHPKHDVFLSFRGKDVRHNFVSHLNAALCREKIETFIDD-KLNRGNEISP 60
A +++ ++ P HD+F+S +D + +FV L L E + DD L G+ +
Sbjct: 7 AGPTTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRR 65
Query: 61 SLSSAIEGSKISIVIFSEGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPSD-AGYC 119
S+ + S+ IV+ S + W EL + + ++ ++P+++ V + A +
Sbjct: 66 SIDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFS 125
Query: 120 PSLG 123
P++
Sbjct: 126 PTMA 129
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 44/145 (30%), Positives = 64/145 (44%), Gaps = 32/145 (22%)
Query: 458 KDPGKRSRLWHPEDI--YQVLNENTSLPTGINLDSLKELYLGGCSNLKRFPEISCNIEDL 515
KD +LWH D+ Q+ N + ++ D L LYL G S
Sbjct: 217 KDSKYDDQLWHALDLSNLQIFNISANI---FKYDFLTRLYLNGNS--------------- 258
Query: 516 DLKETAIEELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCLKLEKLPE 575
+ ELP+ I NLS L LDL++ + L S+ + L + L+ + + LP
Sbjct: 259 ------LTELPAEIKNLSNLRVLDLSH-NRLTSLPAELGSCFQLKYFYFFDNM-VTTLPW 310
Query: 576 EIGNLESLEYL----NLAEKDFEKI 596
E GNL +L++L N EK F KI
Sbjct: 311 EFGNLCNLQFLGVEGNPLEKQFLKI 335
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 45/98 (45%), Gaps = 2/98 (2%)
Query: 515 LDLKETAIEELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCLKLEKLP 574
LDL I + ++I L L L N + L + + + NL +LR L+LS +L LP
Sbjct: 229 LDLSNLQIFNISANIFKYDFLTRLYL-NGNSLTELPAEIKNLSNLRVLDLSHN-RLTSLP 286
Query: 575 EEIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQ 612
E+G+ L+Y + +P L L L ++
Sbjct: 287 AELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE 324
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 39/112 (34%), Positives = 56/112 (50%), Gaps = 13/112 (11%)
Query: 512 IEDLDLKETAIEELPSSIGNLSRLVDLDLT--NCSGLKSVSSRLCNLKSLRRLNLSGCLK 569
+++LDL T + ELPS + LS L L L+ L +S+ N SL L++ G K
Sbjct: 280 LQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISAS--NFPSLTHLSIKGNTK 337
Query: 570 -LEKLPEEIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQNCKRLQSL 620
LE + NLE+L L+L+ D E S +L+L+N LQSL
Sbjct: 338 RLELGTGCLENLENLRELDLSHDDIET--------SDCCNLQLRNLSHLQSL 381
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 38/104 (36%), Positives = 54/104 (51%), Gaps = 5/104 (4%)
Query: 512 IEDLDLKETAIEELPSSIGNLS-RLVDLDLTNCSGLKSVSSRLC-NLK-SLRRLNLSGCL 568
+ DL E + ELP S+ NLS L+ LDL++ + + LC N K +L+ L L
Sbjct: 344 VLDLSFNEFS-GELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNG 402
Query: 569 KLEKLPEEIGNLESLEYLNLAEKDFE-KIPSSMKQLSKLSDLRL 611
K+P + N L L+L+ IPSS+ LSKL DL+L
Sbjct: 403 FTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 446
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 573 LPEEIGNLESLEYLNLAEKDFE-KIPSSMKQLSKLSDLRLQNCKRLQSLPEL 623
+P+E+G+L L L+L+ + +IP +M L+ L+++ L N +PE+
Sbjct: 669 IPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 720
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 44/86 (51%), Gaps = 2/86 (2%)
Query: 524 ELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCLKLEKLPEEIGNLESL 583
E+PS + N + L + L+N + + L++L L LS +P E+G+ SL
Sbjct: 478 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSL 537
Query: 584 EYLNLAEKDFE-KIPSSM-KQLSKLS 607
+L+L F IP++M KQ K++
Sbjct: 538 IWLDLNTNLFNGTIPAAMFKQSGKIA 563
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 38/104 (36%), Positives = 54/104 (51%), Gaps = 5/104 (4%)
Query: 512 IEDLDLKETAIEELPSSIGNLS-RLVDLDLTNCSGLKSVSSRLC-NLK-SLRRLNLSGCL 568
+ DL E + ELP S+ NLS L+ LDL++ + + LC N K +L+ L L
Sbjct: 347 VLDLSFNEFS-GELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNG 405
Query: 569 KLEKLPEEIGNLESLEYLNLAEKDFE-KIPSSMKQLSKLSDLRL 611
K+P + N L L+L+ IPSS+ LSKL DL+L
Sbjct: 406 FTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 449
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 573 LPEEIGNLESLEYLNLAEKDFE-KIPSSMKQLSKLSDLRLQNCKRLQSLPEL 623
+P+E+G+L L L+L+ + +IP +M L+ L+++ L N +PE+
Sbjct: 672 IPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 723
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 44/86 (51%), Gaps = 2/86 (2%)
Query: 524 ELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCLKLEKLPEEIGNLESL 583
E+PS + N + L + L+N + + L++L L LS +P E+G+ SL
Sbjct: 481 EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSL 540
Query: 584 EYLNLAEKDFE-KIPSSM-KQLSKLS 607
+L+L F IP++M KQ K++
Sbjct: 541 IWLDLNTNLFNGTIPAAMFKQSGKIA 566
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/104 (33%), Positives = 58/104 (55%), Gaps = 5/104 (4%)
Query: 511 NIEDLDLKETAIEELPS-SIGNLSRLVDLDLTNCSGLKSVSSRLCN-LKSLRRLNLSGCL 568
N+ L+L + + +P+ + LS+L +L L N + ++S+ S N + SLRRL+L
Sbjct: 113 NLNTLELFDNRLTTIPNGAFVYLSKLKELWLRN-NPIESIPSYAFNRIPSLRRLDLGELK 171
Query: 569 KLEKLPE-EIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRL 611
+L + E L +L YLNLA + +IP ++ L KL +L L
Sbjct: 172 RLSYISEGAFEGLSNLRYLNLAMCNLREIP-NLTPLIKLDELDL 214
>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 = 32.7 bits (73), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 54/122 (44%), Gaps = 7/122 (5%)
Query: 266 LDGFVPGSRVIITTRDVQLLKNHRGSRVGHVFEVKE-LSYNDSLTLFSRNAFGQNHPAAG 324
L F ++++TTRD + + G + +V V+ L L + S N A
Sbjct: 257 LKAFDSQCQILLTTRDKSVTDSVMGPK--YVVPVESSLGKEKGLEILS---LFVNMKKAD 311
Query: 325 FLELSNIVIKYANGVPLALQVLGSYLKGMSEEEWESAVNKLKRMPHMDIQKVLKVSYDGL 384
E ++ +IK G PL + ++G+ L+ WE + +L+ I+K Y+ L
Sbjct: 312 LPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEAL 370
Query: 385 DD 386
D+
Sbjct: 371 DE 372
>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 = 32.7 bits (73), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 54/122 (44%), Gaps = 7/122 (5%)
Query: 266 LDGFVPGSRVIITTRDVQLLKNHRGSRVGHVFEVKE-LSYNDSLTLFSRNAFGQNHPAAG 324
L F ++++TTRD + + G + +V V+ L L + S N A
Sbjct: 251 LKAFDSQCQILLTTRDKSVTDSVMGPK--YVVPVESSLGKEKGLEILS---LFVNMKKAD 305
Query: 325 FLELSNIVIKYANGVPLALQVLGSYLKGMSEEEWESAVNKLKRMPHMDIQKVLKVSYDGL 384
E ++ +IK G PL + ++G+ L+ WE + +L+ I+K Y+ L
Sbjct: 306 LPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEAL 364
Query: 385 DD 386
D+
Sbjct: 365 DE 366
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 32.7 bits (73), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV L+ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 99 SGLSSLQKLVALE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 155
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 156 LDLSSNKIQSI 166
>pdb|3EBI|A Chain A, Structure Of The M1 Alanylaminopeptidase From Malaria
Complexed With The Phosphinate Dipeptide Analog
Length = 890
Score = 32.7 bits (73), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 6/62 (9%)
Query: 450 EIVRQESIKDPGKRSRLWHPEDIYQVLN--ENTSLPTGINLDSLKELYLGGCSNLKRFPE 507
E++ QE +K + R +DIY++L EN L N + ++ +YL +NL+RF +
Sbjct: 763 ELLLQEWLKTVSRSDR----KDIYEILKKLENEVLKDSKNPNDIRAVYLPFTNNLRRFHD 818
Query: 508 IS 509
IS
Sbjct: 819 IS 820
>pdb|3T8V|A Chain A, A Bestatin-Based Chemical Biology Strategy Reveals
Distinct Roles For Malaria M1- And M17-Family
Aminopeptidases
Length = 895
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 6/62 (9%)
Query: 450 EIVRQESIKDPGKRSRLWHPEDIYQVLN--ENTSLPTGINLDSLKELYLGGCSNLKRFPE 507
E++ QE +K + R +DIY++L EN L N + ++ +YL +NL+RF +
Sbjct: 762 ELLLQEWLKTVSRSDR----KDIYEILKKLENEVLKDSKNPNDIRAVYLPFTNNLRRFHD 817
Query: 508 IS 509
IS
Sbjct: 818 IS 819
>pdb|3EBG|A Chain A, Structure Of The M1 Alanylaminopeptidase From Malaria
pdb|3EBH|A Chain A, Structure Of The M1 Alanylaminopeptidase From Malaria
Complexed With Bestatin
Length = 889
Score = 32.7 bits (73), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 6/62 (9%)
Query: 450 EIVRQESIKDPGKRSRLWHPEDIYQVLN--ENTSLPTGINLDSLKELYLGGCSNLKRFPE 507
E++ QE +K + R +DIY++L EN L N + ++ +YL +NL+RF +
Sbjct: 762 ELLLQEWLKTVSRSDR----KDIYEILKKLENEVLKDSKNPNDIRAVYLPFTNNLRRFHD 817
Query: 508 IS 509
IS
Sbjct: 818 IS 819
>pdb|3Q43|A Chain A, X-Ray Crystal Structure Of Pfa-M1 Bound To Bestatin
Derivative 15
pdb|3Q44|A Chain A, X-Ray Crystal Structure Of Pfa-M1 Bound To Bestatin
Derivative 16
Length = 891
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 35/62 (56%), Gaps = 6/62 (9%)
Query: 450 EIVRQESIKDPGKRSRLWHPEDIYQVLN--ENTSLPTGINLDSLKELYLGGCSNLKRFPE 507
E++ QE +K + R +DIY++L EN L N + ++ +YL +NL+RF +
Sbjct: 763 ELLLQEWLKTVSRSDR----KDIYEILKKLENEVLKDSKNPNDIRAVYLPFTNNLRRFHD 818
Query: 508 IS 509
IS
Sbjct: 819 IS 820
>pdb|2O2E|A Chain A, Mycobacterium Tuberculosis Tryptophan Synthase Beta
Subunit Dimer (Apoform)
pdb|2O2E|B Chain B, Mycobacterium Tuberculosis Tryptophan Synthase Beta
Subunit Dimer (Apoform)
pdb|2O2J|A Chain A, Mycobacterium Tuberculosis Tryptophan Synthase Beta Chain
Dimer (Apoform)
pdb|2O2J|B Chain B, Mycobacterium Tuberculosis Tryptophan Synthase Beta Chain
Dimer (Apoform)
Length = 422
Score = 32.3 bits (72), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 26/59 (44%)
Query: 388 EQNIFLDTACFFKGNDQYLVMNFLDACRFSAKIGISRLVGKSLVTISNNKITMHDLLQE 446
+ + TAC G D + M +D R + + RL+G +V + T+ D + E
Sbjct: 140 QHGVATATACALLGLDCVIYMGGIDTARQALNVARMRLLGAEVVAVQTGSKTLKDAINE 198
>pdb|2YNM|A Chain A, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
pdb|2YNM|B Chain B, Structure Of The Adpxalf3-stabilized Transition State Of
The Nitrogenase-like Dark-operative Protochlorophyllide
Oxidoreductase Complex From Prochlorococcus Marinus With
Its Substrate Protochlorophyllide A
Length = 301
Score = 32.3 bits (72), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 30/49 (61%), Gaps = 2/49 (4%)
Query: 544 SGLKSVSSRLCNLKSLRRLNLSGCLKLEKLPEEIGNLESL-EYLNLAEK 591
+GLK+++ N+ ++RR L C E PEE G LE EYL+LA+K
Sbjct: 229 TGLKTMA-HFRNVDAIRRSRLKKCTIFEMDPEEEGVLEVQNEYLSLAKK 276
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 55/120 (45%), Gaps = 12/120 (10%)
Query: 504 RFPEIS-------CNIEDLDLKETAIEELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNL 556
RF +IS +++LDL T ++ LPS + L+ L L L+ + N
Sbjct: 262 RFSDISSTTFQCFTQLQELDLTATHLKGLPSGMKGLNLLKKLVLSVNHFDQLCQISAANF 321
Query: 557 KSLRRLNLSGCLKLEKLPEEIGNLE---SLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQN 613
SL L + G +K KL +G LE +L+ L+L+ D E QL LS L+ N
Sbjct: 322 PSLTHLYIRGNVK--KLHLGVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLN 379
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 61/142 (42%), Gaps = 32/142 (22%)
Query: 477 NENTSLPTGI--NLDSLKELYLG----GCSNLKRFPEISCNIEDLDLKETAIEELPSSIG 530
N+ T L G+ +L +LKELYLG G + F ++ + LDL + LPS++
Sbjct: 50 NQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLT-QLTVLDLGTNQLTVLPSAVF 108
Query: 531 NLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCLKLEKLPEEIGNLESLEYLNLAE 590
+ RL +LK L C KL +LP I L L +L L +
Sbjct: 109 D--------------------RLVHLKEL----FMCCNKLTELPRGIERLTHLTHLALDQ 144
Query: 591 KDFEKIP-SSMKQLSKLSDLRL 611
+ IP + +LS L+ L
Sbjct: 145 NQLKSIPHGAFDRLSSLTHAYL 166
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 52/110 (47%), Gaps = 9/110 (8%)
Query: 512 IEDLDLKETAIEELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCL-KL 570
+++LDL + LPS I ++ L L L S + + SLR L + G + KL
Sbjct: 279 VQELDLTAAHLNGLPSGIEGMNSLKKLVLNANSFDQLCQINAASFPSLRDLYIKGNMRKL 338
Query: 571 EKLPEEIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQNCKRLQSL 620
+ + LE+L+ L+L+ D E S +L+L+N + LQ L
Sbjct: 339 DLGTRCLEKLENLQKLDLSHSDIEA--------SDCCNLQLKNLRHLQYL 380
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 513 EDLDLKETAIEELPSSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLSGCLKLEK 572
E L L++ A +E P L+D+ T+ +K+ S NL LR LNLS CL
Sbjct: 386 EPLGLEDQAFKECPQL-----ELLDVAFTHLH-VKAPHSPFQNLHLLRVLNLSHCLLDTS 439
Query: 573 LPEEIGNLESLEYLNLAEKDFE 594
+ L+ L +LNL F+
Sbjct: 440 NQHLLAGLQDLRHLNLQGNSFQ 461
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 98 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 154
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 155 LDLSSNKIQSI 165
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 99 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 155
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 156 LDLSSNKIQSI 166
>pdb|3F0W|A Chain A, Human Numb-Like Protein, Phosphotyrosine Interaction
Domain
Length = 168
Score = 31.6 bits (70), Expect = 1.5, Method: Composition-based stats.
Identities = 23/63 (36%), Positives = 31/63 (49%), Gaps = 6/63 (9%)
Query: 359 ESAVNKLKRMPHMDIQKVLKVSYDGL---DDEEQNIFLDTA---CFFKGNDQYLVMNFLD 412
E AV KLK M ++ VL VS DGL DD+ +++ +D F D+ L F
Sbjct: 64 EDAVKKLKAMGRKSVKSVLWVSADGLRVVDDKTKDLLVDQTIEKVSFCAPDRNLDKAFSY 123
Query: 413 ACR 415
CR
Sbjct: 124 ICR 126
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 98 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 154
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 155 LDLSSNKIQSI 165
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 97 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 153
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 154 LDLSSNKIQSI 164
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 121 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 177
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 178 LDLSSNKIQSI 188
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 97 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 153
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 154 LDLSSNKIQSI 164
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 527 SSIGNLSRLVDLDLTNCSGLKSVSSRLCNLKSLRRLNLS-GCLKLEKLPEEIGNLESLEY 585
S + +L +LV ++ TN + L++ + +LK+L+ LN++ ++ KLPE NL +LE+
Sbjct: 97 SGLSSLQKLVAVE-TNLASLENFP--IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEH 153
Query: 586 LNLAEKDFEKI 596
L+L+ + I
Sbjct: 154 LDLSSNKIQSI 164
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 52/106 (49%), Gaps = 9/106 (8%)
Query: 500 SNLKRFPEISC-----NIEDLDLKETAIEELPSSIGN-LSRLVDLDLTNCSGLKS-VSSR 552
SNLK+ E S N+ LD+ T + I N LS L L + S ++ +
Sbjct: 406 SNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI 465
Query: 553 LCNLKSLRRLNLSGCLKLEKL-PEEIGNLESLEYLNLAEKDFEKIP 597
L++L L+LS C +LE+L P +L SL+ LN+A + +P
Sbjct: 466 FTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMASNQLKSVP 510
>pdb|3G04|C Chain C, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
pdb|2XWT|C Chain C, Crystal Structure Of The Tsh Receptor In Complex With A
Blocking Type Tshr Autoantibody
Length = 239
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 35/130 (26%), Positives = 60/130 (46%), Gaps = 31/130 (23%)
Query: 499 CSNLKRFPEISCNIEDLDLKETAIEELP----SSIGNLSRL-VDLDLTNCSGLKSVSSRL 553
C +++R P + + + L L ET + +P S++ N+SR+ V +D+T L
Sbjct: 20 CKDIQRIPSLPPSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVT-----------L 68
Query: 554 CNLKSLRRLNLSGCLKLEKLPEEIGNLESLEYLNLAEKDFEKIPSSMKQLSKLSDLRLQN 613
L+S NLS + EI N +L Y++ P ++K+L L L + N
Sbjct: 69 QQLESHSFYNLSKVTHI-----EIRNTRNLTYID---------PDALKELPLLKFLGIFN 114
Query: 614 CKRLQSLPEL 623
L+ P+L
Sbjct: 115 TG-LKMFPDL 123
>pdb|3UB4|A Chain A, S180l Variant Of Tir Domain Of MalTIRAP
Length = 146
Score = 30.0 bits (66), Expect = 4.8, Method: Composition-based stats.
Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 2/75 (2%)
Query: 55 GNEISPSLSSAIEGSKISIVIFSEGYASSRWCLNELVKILESKNKYGQIVVPVFYLVDPS 114
G I L A+ S +++ + G+ WC ++++ L +P+ L+ S
Sbjct: 51 GGAIVSELCQALSSSHCRVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPL--LLGLS 108
Query: 115 DAGYCPSLGWMGIFD 129
A Y P L +M D
Sbjct: 109 RAAYPPELRFMYYVD 123
>pdb|2CSE|1 Chain 1, Features Of Reovirus Outer-Capsid Protein Mu1 Revealed By
Electron And Image Reconstruction Of The Virion At 7.0-A
Resolution
Length = 1267
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 93 ILESKNKYGQIVVPVFYLVDPSDAGYCPSLGWMGIFDIPTSESVLIEGNVNDISKKLSDL 152
IL++K+ + Q + Y + + GYCP+L W+ P S+ + V +S K +
Sbjct: 270 ILKTKSIFPQNTLHSMY--ESLEGGYCPNLEWLE----PRSDYKFMYMGVMPLSTKYARS 323
Query: 153 FPSDNKD-----QLVGVESIIKEIESQ 174
PS++K + G+ S++ E+ +
Sbjct: 324 APSNDKKARELGEKYGLSSVVSELRKR 350
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 29.6 bits (65), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 55/124 (44%), Gaps = 11/124 (8%)
Query: 266 LDGFVPGSRVIITTRDVQLLKNHRGSRVGHVFEVKE-LSYNDSLTLFSR--NAFGQNHPA 322
L F ++++TTRD + + G + HV V+ L L + S N ++ PA
Sbjct: 251 LKAFDNQCQILLTTRDKSVTDSVMGPK--HVVPVESGLGREKGLEILSLFVNMKKEDLPA 308
Query: 323 AGFLELSNIVIKYANGVPLALQVLGSYLKGMSEEEWESAVNKLKRMPHMDIQKVLKVSYD 382
++ +IK G PL + ++G+ L+ W + +L+ I+K Y+
Sbjct: 309 E-----AHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQNKQFKRIRKSSSYDYE 362
Query: 383 GLDD 386
LD+
Sbjct: 363 ALDE 366
>pdb|1MUK|A Chain A, Reovirus Lambda3 Native Structure
pdb|1MWH|A Chain A, Reovirus Polymerase Lambda3 Bound To Mrna Cap Analog
pdb|1N1H|A Chain A, Initiation Complex Of Polymerase Lambda3 From Reovirus
pdb|1N35|A Chain A, Lambda3 Elongation Complex With Four Phosphodiester Bond
Formed
pdb|1N38|A Chain A, Reovirus Polymerase Lambda3 Elongation Complex With One
Phosphodiester Bond Formed
pdb|1UON|A Chain A, Reovirus Polymerase Lambda-3 Localized By Electron
Cryomicroscopy Of Virions At 7.6-a Resolution
Length = 1267
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 93 ILESKNKYGQIVVPVFYLVDPSDAGYCPSLGWMGIFDIPTSESVLIEGNVNDISKKLSDL 152
IL++K+ + Q + Y + + GYCP+L W+ P S+ + V +S K +
Sbjct: 270 ILKTKSIFPQNTLHSMY--ESLEGGYCPNLEWLE----PRSDYKFMYMGVMPLSAKYARS 323
Query: 153 FPSDNKD-----QLVGVESIIKEIESQ 174
PS++K + G+ S++ E+ +
Sbjct: 324 APSNDKKARELGEKYGLSSVVGELRKR 350
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 0.136 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,073,073
Number of Sequences: 62578
Number of extensions: 726931
Number of successful extensions: 2067
Number of sequences better than 100.0: 57
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 44
Number of HSP's that attempted gapping in prelim test: 1993
Number of HSP's gapped (non-prelim): 92
length of query: 664
length of database: 14,973,337
effective HSP length: 105
effective length of query: 559
effective length of database: 8,402,647
effective search space: 4697079673
effective search space used: 4697079673
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: 55 (25.8 bits)