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= 045458
(1170 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 84.3 bits (207), Expect = 4e-16, Method: Composition-based stats.
Identities = 69/235 (29%), Positives = 107/235 (45%), Gaps = 38/235 (16%)
Query: 623 LKKFPEIVESMEDLSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVR-IPDSINGLK 681
L +FP+ + L +D + E+P + + GL L L +N +R +P SI L
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL--ARNPLRALPASIASLN 150
Query: 682 SLQSLNLSGCFKLENVPETLGQVES---------LEELHISGTAIRQPPSGIFHMKNLKA 732
L+ L++ C +L +PE L ++ L+ L + T IR P+ I +++NLK+
Sbjct: 151 RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKS 210
Query: 733 LYFRGCKGSPSSTSWSRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDCDLGEGFI 792
L R SP S + P++ L L +LDL C +
Sbjct: 211 LKIRN---SPLS---------------------ALGPAIHHLPKLEELDLRGCTALRNY- 245
Query: 793 PNDIGNLRSLKVLCLSNNS-FVSLPASISRLSKLECLNLNGCKKLQSLPPLPARM 846
P G LK L L + S ++LP I RL++LE L+L GC L LP L A++
Sbjct: 246 PPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 56.2 bits (134), Expect = 1e-07, Method: Composition-based stats.
Identities = 54/162 (33%), Positives = 75/162 (46%), Gaps = 17/162 (10%)
Query: 415 LPEGLECLSNKLRLLDWPGYP-LKSLP-PNLQLDKTIEFKMLCS----RIEELWKGIKSL 468
LP + L N+LR L P L LP P D + E + L + R+E W GI+SL
Sbjct: 142 LPASIASL-NRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE--WTGIRSL 198
Query: 469 -------NMLKVMKVSYSQSLIKIPDFTGVPNLEKLYLEGCTRLREIHPSLLLHSKLVIL 521
LK +K+ S P +P LE+L L GCT LR P + L L
Sbjct: 199 PASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRL 258
Query: 522 NLTGCTSLATLPGKIF-MKSVKKLVLSGCSKLKKFPKIVGNM 562
L C++L TLP I + ++KL L GC L + P ++ +
Sbjct: 259 ILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 50.8 bits (120), Expect = 4e-06, Method: Composition-based stats.
Identities = 43/166 (25%), Positives = 74/166 (44%), Gaps = 18/166 (10%)
Query: 505 LREIHPSLLLHSKLVILNLTGCTSLATLP-------------GKIFMKSVKKLVLSGCSK 551
LR + S+ ++L L++ C L LP G + ++S++ L +G
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLR-LEWTG--- 194
Query: 552 LKKFPKIVGNMECLSKLLLDGTAIGELPLSIELLSKLVSLDLNNCKNFKNLPVTISSLKC 611
++ P + N++ L L + + + L +I L KL LDL C +N P
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254
Query: 612 LRSLVLSGCSKLKKFPEIVESMEDLSELFLDG-TSITEVPSSIELL 656
L+ L+L CS L P + + L +L L G +++ +PS I L
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>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 = 46.6 bits (109), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 74/288 (25%), Positives = 123/288 (42%), Gaps = 33/288 (11%)
Query: 576 GELPLSIELLSKLVSLDLNNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVESMED 635
G++P ++ S+LVSL L+ +P ++ SL LR L L + P+ + ++
Sbjct: 405 GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKT 464
Query: 636 LSELFLDGTSIT-EVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKL 694
L L LD +T E+PS + T LN ++L++ + IP I L++L L LS
Sbjct: 465 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS 524
Query: 695 ENVPETLGQVESLEELHISGTAIRQP-PSGIFHMKNLKALYF---------------RGC 738
N+P LG SL L ++ P+ +F A F + C
Sbjct: 525 GNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKEC 584
Query: 739 KGSPSSTSW-----------SRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDCDL 787
G+ + + S P N+ R P+ S+ LD+S ++
Sbjct: 585 HGAGNLLEFQGIRSEQLNRLSTRNPCNITSRV---YGGHTSPTFDNNGSMMFLDMS-YNM 640
Query: 788 GEGFIPNDIGNLRSLKVLCLSNNSFV-SLPASISRLSKLECLNLNGCK 834
G+IP +IG++ L +L L +N S+P + L L L+L+ K
Sbjct: 641 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNK 688
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 38/128 (29%), Positives = 59/128 (46%), Gaps = 17/128 (13%)
Query: 627 PEIVESMEDLSELFLDGTSIT-EVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQS 685
P+ + SM L L L I+ +P + L GLN+L+L+ K RIP +++ L L
Sbjct: 646 PKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTE 705
Query: 686 LNLSGCFKLENVPETLGQVES------LEELHISGTAI-RQPPSGI--------FHMKNL 730
++LS +PE +GQ E+ L + G + R PS H + L
Sbjct: 706 IDLSNNNLSGPIPE-MGQFETFPPAKFLNNPGLCGYPLPRCDPSNADGYAHHQRSHGRRL 764
Query: 731 KALYFRGC 738
+ LYF+G
Sbjct: 765 ENLYFQGA 772
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 74/288 (25%), Positives = 123/288 (42%), Gaps = 33/288 (11%)
Query: 576 GELPLSIELLSKLVSLDLNNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVESMED 635
G++P ++ S+LVSL L+ +P ++ SL LR L L + P+ + ++
Sbjct: 408 GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKT 467
Query: 636 LSELFLDGTSIT-EVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKL 694
L L LD +T E+PS + T LN ++L++ + IP I L++L L LS
Sbjct: 468 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS 527
Query: 695 ENVPETLGQVESLEELHISGTAIRQP-PSGIFHMKNLKALYF---------------RGC 738
N+P LG SL L ++ P+ +F A F + C
Sbjct: 528 GNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKEC 587
Query: 739 KGSPSSTSW-----------SRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDCDL 787
G+ + + S P N+ R P+ S+ LD+S ++
Sbjct: 588 HGAGNLLEFQGIRSEQLNRLSTRNPCNITSRV---YGGHTSPTFDNNGSMMFLDMS-YNM 643
Query: 788 GEGFIPNDIGNLRSLKVLCLSNNSFV-SLPASISRLSKLECLNLNGCK 834
G+IP +IG++ L +L L +N S+P + L L L+L+ K
Sbjct: 644 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNK 691
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 27/82 (32%), Positives = 43/82 (52%), Gaps = 2/82 (2%)
Query: 627 PEIVESMEDLSELFLDGTSIT-EVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQS 685
P+ + SM L L L I+ +P + L GLN+L+L+ K RIP +++ L L
Sbjct: 649 PKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTE 708
Query: 686 LNLSGCFKLENVPETLGQVESL 707
++LS +PE +GQ E+
Sbjct: 709 IDLSNNNLSGPIPE-MGQFETF 729
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 42.0 bits (97), Expect = 0.002, Method: Composition-based stats.
Identities = 56/199 (28%), Positives = 91/199 (45%), Gaps = 12/199 (6%)
Query: 649 VPSSIELLTGLNVLNLNDCKNLV-RIPDSINGLKSLQSLNLSGCFKLENVPETLGQVESL 707
+PSS+ L LN L + NLV IP +I L L L ++ +P+ L Q+++L
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 708 EELHISGTAIRQ--PPSGIFHMKNLKALYFRGCKGS----PSSTSWSRHFPFNLIKRSLD 761
L S A+ PPS I + NL + F G + S S S+S+ F I R +
Sbjct: 128 VTLDFSYNALSGTLPPS-ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISR--N 184
Query: 762 PVAFSFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSLPASISR 821
+ PP+ + L +L +DLS ++ EG G+ ++ + + L+ NS +
Sbjct: 185 RLTGKIPPTFANL-NLAFVDLSR-NMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGL 242
Query: 822 LSKLECLNLNGCKKLQSLP 840
L L+L + +LP
Sbjct: 243 SKNLNGLDLRNNRIYGTLP 261
Score = 32.0 bits (71), Expect = 2.0, Method: Composition-based stats.
Identities = 58/241 (24%), Positives = 101/241 (41%), Gaps = 31/241 (12%)
Query: 491 VPNLEKLYLEGCTRL-REIHPSLLLHSKLVILNLTGCTSLATLPGKIFMKSVKKLV---- 545
+P L LY+ G L I P++ ++L L +T +P F+ +K LV
Sbjct: 75 LPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPD--FLSQIKTLVTLDF 132
Query: 546 ----LSGCSKLKKFPKIVGNMECLSKLLLDGTAI-GELPLSIELLSKL-VSLDLNNCKNF 599
LSG P + ++ L + DG I G +P S SKL S+ ++ +
Sbjct: 133 SYNALSG-----TLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT 187
Query: 600 KNLPVTISSLKC----LRSLVLSGCSKLKKFPEIVESMEDLSELFLDGTSITEVPSSIEL 655
+P T ++L L +L G + + + S ++ ++ L S+ + L
Sbjct: 188 GKIPPTFANLNLAFVDLSRNMLEGDASV-----LFGSDKNTQKIHLAKNSLAFDLGKVGL 242
Query: 656 LTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLENVPETLGQVESLEELHISGT 715
LN L+L + + +P + LK L SLN+S N+ + Q +L+ +S
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS----FNNLCGEIPQGGNLQRFDVSAY 298
Query: 716 A 716
A
Sbjct: 299 A 299
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 59/215 (27%), Positives = 92/215 (42%), Gaps = 53/215 (24%)
Query: 621 SKLKKFP-EIVESMEDLSELFLDGTSITEVPS-SIELLTGLNVLNLNDCKNLVRIPDS-I 677
++L P + E + L EL+L I +PS + + L L+L + K L I ++
Sbjct: 93 NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAF 152
Query: 678 NGLKSLQSLNLSGCFKLENVPETLGQVESLEELHISGTAIRQPPSGIFHMKNLKALYFRG 737
GL +L+ LNL C L+++P V LEEL +SG +
Sbjct: 153 EGLVNLRYLNLGMC-NLKDIPNLTALVR-LEELELSGNRL-------------------- 190
Query: 738 CKGSPSSTSWSRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIG 797
+LI+ P S GL SL KL L + N
Sbjct: 191 ----------------DLIR----------PGSFQGLTSLRKLWLMHAQVA-TIERNAFD 223
Query: 798 NLRSLKVLCLSNNSFVSLPASI-SRLSKLECLNLN 831
+L+SL+ L LS+N+ +SLP + + L +LE ++LN
Sbjct: 224 DLKSLEELNLSHNNLMSLPHDLFTPLHRLERVHLN 258
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 38.9 bits (89), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 79/323 (24%), Positives = 130/323 (40%), Gaps = 98/323 (30%)
Query: 430 DWPGYPLKSLPPNLQLD--------KTIEFKMLCSRI------EELWKGIKSLNMLKVMK 475
++PG SLP L L + ++ +C R E LW+ +L+ +V
Sbjct: 3 NFPGVSWDSLPDELLLGIFSCLCLPELLKVSGVCKRWYRLASDESLWQ---TLDEFRVQH 59
Query: 476 VSYSQSLIKIPDFTGV----PNLEKLYLEGCTRLREIHPSLLLHSKLVILNLTGCTSLAT 531
+ S S+I++ G+ L+ L LEG I +L +S LV LNL+GC+
Sbjct: 60 MDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSG--- 116
Query: 532 LPGKIFMKSVKKLVLSGCSKLKKFPKIVGNMECLSKLLLDGTAIGELPLSIELLSKLVSL 591
F + + +LS CS+L + L
Sbjct: 117 -----FSEFALQTLLSSCSRLDE------------------------------------L 135
Query: 592 DLNNCKNF--KNLPVTISSL-KCLRSLVLSGCSK-LKKFPEIVESMEDLSELFLDGTSIT 647
+L+ C +F K++ V ++ + + + L LSG K L+K DLS L +
Sbjct: 136 NLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQK--------SDLSTL------VR 181
Query: 648 EVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLENVPET---LGQV 704
P+ + L +V+ NDC L LQ L+LS C+ + +PET LG++
Sbjct: 182 RCPNLVHLDLSDSVMLKNDCFQ------EFFQLNYLQHLSLSRCYDI--IPETLLELGEI 233
Query: 705 ESLEELHISGTAIRQPPSGIFHM 727
+L+ L + G P G +
Sbjct: 234 PTLKTLQVFGIV----PDGTLQL 252
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 38.9 bits (89), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 59/215 (27%), Positives = 93/215 (43%), Gaps = 53/215 (24%)
Query: 621 SKLKKFP-EIVESMEDLSELFLDGTSITEVPS-SIELLTGLNVLNLNDCKNLVRIPDS-I 677
++L P + E + L EL+L I +PS + + L L+L + K L I ++
Sbjct: 93 NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAF 152
Query: 678 NGLKSLQSLNLSGCFKLENVPETLGQVESLEELHISGTAIRQPPSGIFHMKNLKALYFRG 737
GL +L+ LNL C L+++P L + LEEL +SG +
Sbjct: 153 EGLVNLRYLNLGMC-NLKDIPN-LTALVRLEELELSGNRL-------------------- 190
Query: 738 CKGSPSSTSWSRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIG 797
+LI+ P S GL SL KL L + N
Sbjct: 191 ----------------DLIR----------PGSFQGLTSLRKLWLMHAQVAT-IERNAFD 223
Query: 798 NLRSLKVLCLSNNSFVSLPASI-SRLSKLECLNLN 831
+L+SL+ L LS+N+ +SLP + + L +LE ++LN
Sbjct: 224 DLKSLEELNLSHNNLMSLPHDLFTPLHRLERVHLN 258
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 36.6 bits (83), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 62/133 (46%), Gaps = 6/133 (4%)
Query: 611 CLRSLVLSGCSKLKKFPEIVESMEDLSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNL 670
CL ++V LK P+ + D++EL+LDG T VP + L +++L++ +
Sbjct: 10 CLDTVVRCSNKGLKVLPKGIP--RDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRIS 67
Query: 671 VRIPDSINGLKSLQSLNLSGCFKLENV-PETLGQVESLEELHISGTAIRQPPSGIFHMKN 729
S + + L +L LS +L + P T ++SL L + G I P G F+ +
Sbjct: 68 TLSNQSFSNMTQLLTLILSY-NRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFN--D 124
Query: 730 LKALYFRGCKGSP 742
L AL +P
Sbjct: 125 LSALSHLAIGANP 137
>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 = 36.6 bits (83), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 53/110 (48%), Gaps = 22/110 (20%)
Query: 636 LSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLE 695
L+ L+L+G S+TE+P+ I+ L+ L VL+L S N L SL + L CF+L+
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDL-----------SHNRLTSLPA-ELGSCFQLK 296
Query: 696 ----------NVPETLGQVESLEELHISGTAIRQPPSGIFHMKNLKALYF 735
+P G + +L+ L + G + + I K++ L F
Sbjct: 297 YFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIF 346
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 2/50 (4%)
Query: 777 LTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSLPASISRLSKLE 826
LT+L L+ L E +P +I NL +L+VL LS+N SLPA + +L+
Sbjct: 249 LTRLYLNGNSLTE--LPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLK 296
Score = 30.0 bits (66), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 29/46 (63%), Gaps = 1/46 (2%)
Query: 563 ECLSKLLLDGTAIGELPLSIELLSKLVSLDLNNCKNFKNLPVTISS 608
+ L++L L+G ++ ELP I+ LS L LDL++ + +LP + S
Sbjct: 247 DFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGS 291
>pdb|4H09|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|B Chain B, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|C Chain C, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|D Chain D, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|E Chain E, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
Length = 379
Score = 36.6 bits (83), Expect = 0.094, Method: Composition-based stats.
Identities = 49/155 (31%), Positives = 71/155 (45%), Gaps = 11/155 (7%)
Query: 477 SYSQSLIKIPDFTGVPNLEKLYLEGCTRLREIHPSLLLHSKLVILNLTGCTSLATLPGKI 536
SY ++L KI +GV L G L EI + S L L CT+L TL
Sbjct: 214 SYGKNLKKITITSGVTTLGDGAFYGXKALDEIAIPKNVTSIGSFL-LQNCTALKTLNFYA 272
Query: 537 FMKSVKKLVLSGCSKLKKFPKIVGNMECLS-KLLLDGTAIGELPLSIELLSKLVSLDLNN 595
+K+V L+ SGCS L K +E L ++ D + S+ L + L ++ +
Sbjct: 273 KVKTVPYLLCSGCSNLTKVVXDNSAIETLEPRVFXDCVKLS----SVTLPTALKTIQVYA 328
Query: 596 CKNFKNLPVTISSLKCLRSLVLSGC---SKLKKFP 627
KN K L TIS K + +L+ SG S + K+P
Sbjct: 329 FKNCKALS-TISYPKSI-TLIESGAFEGSSITKYP 361
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 77/353 (21%), Positives = 143/353 (40%), Gaps = 96/353 (27%)
Query: 521 LNLTGCTSLATLPGKIFMKSVKKLVLSGCSKLKKFPKIVGNMECLSKLLLDGT---AIGE 577
LN G +SL LP + + +++ C+ L + P++ + L LL+D A+ +
Sbjct: 78 LNNLGLSSLPELPPHL------ESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSD 128
Query: 578 LPLSIELLS------------------KLVSLDLNNCKNFKNLPVTISSLKCLRSLVLSG 619
LP +E L K++ +D N+ K +LP ++ + +G
Sbjct: 129 LPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLE-------FIAAG 181
Query: 620 CSKLKKFPEIVESMEDLSELFLDGTSITEVPS---SIE-LLTGLNVLNLNDCKNLVRIPD 675
++L++ PE+ +++ L+ ++ D S+ ++P S+E ++ G N+L
Sbjct: 182 NNQLEELPEL-QNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILE------------ 228
Query: 676 SINGLKSLQSLN-LSGCFKLENVPETLGQVESLEELHISGTAIRQPPSGIFHMKNLKALY 734
L LQ+L L+ + N+ +TL + PPS N++ Y
Sbjct: 229 ---ELPELQNLPFLTTIYADNNLLKTLPDL---------------PPS--LEALNVRDNY 268
Query: 735 FRGCKGSPSSTSWSRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDCDLGEGFIPN 794
P S ++ + ++ PP+L L + + S CDL
Sbjct: 269 LTDLPELPQSLTFLD------VSENIFSGLSELPPNLYYLNASSNEIRSLCDLP------ 316
Query: 795 DIGNLRSLKVLCLSNNSFVSLPASISRLSKLECLNLNGCKKLQSLPPLPARMR 847
SL+ L +SNN + LPA RL +L + L +P LP ++
Sbjct: 317 -----PSLEELNVSNNKLIELPALPPRLERL----IASFNHLAEVPELPQNLK 360
Score = 35.4 bits (80), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 79/320 (24%), Positives = 131/320 (40%), Gaps = 56/320 (17%)
Query: 397 KAFSKMTNL-RLLGICNLKLPEGLECLSNK--LRLLDWPGYPLK---SLPPNL------- 443
KA S + L LG+ N +L E L L N L+++D LK LPP+L
Sbjct: 124 KALSDLPPLLEYLGVSNNQL-EKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFIAAGN 182
Query: 444 -QLDKTIEFKMLCSRIEELWKGIKSLNMLKVMKVSY------SQSLIKIPDFTGVPNLEK 496
QL++ E + L + ++ SL L + +S + L ++P+ +P L
Sbjct: 183 NQLEELPELQNL-PFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTT 241
Query: 497 LYLEG--CTRLREIHPSLLLHSKLVILNLTG--CTSLATLPGKIFMKSVKKLVLSGCSKL 552
+Y + L ++ PSL LN+ T L LP + V + + SG S+L
Sbjct: 242 IYADNNLLKTLPDLPPSL------EALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSEL 295
Query: 553 -----------KKFPKIVGNMECLSKLLLDGTAIGELPLSIELLSKLVSLDLNNCKNFKN 601
+ + L +L + + ELP L +L++ N+
Sbjct: 296 PPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIA-SFNHLAEVPE 354
Query: 602 LPVTISSLKCLRSLVLSGCSKLKKFPEIVESMEDLSELFLDGTSITEVPSSIELLTGLNV 661
LP + L + L++FP+I ES+EDL + + EVP + L L+V
Sbjct: 355 LPQNLKQLHV-------EYNPLREFPDIPESVEDLRM----NSHLAEVPELPQNLKQLHV 403
Query: 662 LNLNDCKNLVRIPDSINGLK 681
N + IP+S+ L+
Sbjct: 404 -ETNPLREFPDIPESVEDLR 422
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 35.8 bits (81), Expect = 0.14, Method: Composition-based stats.
Identities = 30/114 (26%), Positives = 55/114 (48%), Gaps = 5/114 (4%)
Query: 627 PEIVESMEDLSELFLDGTSITEVPSSI-ELLTGLNVLNLNDCKNLVRIPDSI-NGLKSLQ 684
P + +S+ +L EL+L + +P + + LT L VL+L L +P ++ + L L+
Sbjct: 57 PGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG-TNQLTVLPSAVFDRLVHLK 115
Query: 685 SLNLSGCFKLENVPETLGQVESLEELHISGTAIRQPPSGIF-HMKNLKALYFRG 737
L + C KL +P + ++ L L + ++ P G F + +L Y G
Sbjct: 116 ELFMC-CNKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFG 168
Score = 34.3 bits (77), Expect = 0.41, Method: Composition-based stats.
Identities = 39/138 (28%), Positives = 58/138 (42%), Gaps = 29/138 (21%)
Query: 556 PKIVGNMECLSKLLLDGTAIGELPLSI-ELLSKLVSLDLNNCKNFKNLPVTISSLKCLRS 614
P + ++ L +L L +G LP+ + + L++L LDL
Sbjct: 57 PGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDL--------------------- 95
Query: 615 LVLSGCSKLKKFPEIV-ESMEDLSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVRI 673
G ++L P V + + L ELF+ +TE+P IE LT L L L D L I
Sbjct: 96 ----GTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLAL-DQNQLKSI 150
Query: 674 PD-SINGLKSLQSLNLSG 690
P + + L SL L G
Sbjct: 151 PHGAFDRLSSLTHAYLFG 168
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 32/70 (45%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 802 LKVLCLSNNSFVSLPASISRLSKLECLNLNGCKKLQSLPPLPARMRIASV--NGCASLET 859
L+ L +S+N SLPA S L KL N +L SLP LP+ ++ SV N ASL T
Sbjct: 143 LQELSVSDNQLASLPALPSELCKLWAYN----NQLTSLPMLPSGLQELSVSDNQLASLPT 198
Query: 860 LSDPLELNKL 869
L P EL KL
Sbjct: 199 L--PSELYKL 206
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 58/217 (26%), Positives = 100/217 (46%), Gaps = 16/217 (7%)
Query: 527 TSLATLPGKIFMKSVKKLVLSGCSKL-KKFPKIVGNMECLSKLLLDGTAIGELPLSIELL 585
TSL LP + SV L+ L + K+ L+ L + + + EL +S L
Sbjct: 134 TSLPVLPPGLQELSVSDNQLASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDNQL 193
Query: 586 SKLVSL--DLNNCKNFKNLPVTISSLKC-LRSLVLSGCSKLKKFPEIVESMEDLSELFLD 642
+ L +L +L + N ++ +L L+ L++SG ++L P + +L EL +
Sbjct: 194 ASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSG-NRLTSLPVLPS---ELKELMVS 249
Query: 643 GTSITEVPSSIELLTGLNVLNLNDCKN-LVRIPDSINGLKSLQSLNLSGCFKLENVPETL 701
G +T +P L +GL L+L+ +N L R+P+S+ L S ++NL G E + L
Sbjct: 250 GNRLTSLPM---LPSGL--LSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQAL 304
Query: 702 GQVESLEELHISGTAIRQPPSGIFHMKNLKALYFRGC 738
++ S SG IR +G + +AL+
Sbjct: 305 REITSAP--GYSGPIIRFDMAGASAPRETRALHLAAA 339
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/70 (40%), Positives = 36/70 (51%), Gaps = 8/70 (11%)
Query: 802 LKVLCLSNNSFVSLPASISRLSKLECLNLNGCKKLQSLPPLPARMR--IASVNGCASLET 859
L+ L +S+N SLP S L KL N +L SLP LP+ ++ I S N SL
Sbjct: 183 LQELSVSDNQLASLPTLPSELYKLWAYN----NRLTSLPALPSGLKELIVSGNRLTSLPV 238
Query: 860 LSDPLELNKL 869
L P EL +L
Sbjct: 239 L--PSELKEL 246
>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 = 33.9 bits (76), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 86/307 (28%), Positives = 124/307 (40%), Gaps = 60/307 (19%)
Query: 565 LSKLLLDGTAIGELPLSIELLSKLVSLDLNNCKNFKNL-PVTISSLKCLRSLVLSGCSK- 622
L +L L T + ELP + LS L L L+ K F+NL ++ S+ L L + G +K
Sbjct: 280 LQELDLTATHLSELPSGLVGLSTLKKLVLSANK-FENLCQISASNFPSLTHLSIKGNTKR 338
Query: 623 LKKFPEIVESMEDLSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKS 682
L+ +E++E+L EL L I +DC NL + L
Sbjct: 339 LELGTGCLENLENLRELDLSHDDIET----------------SDCCNL-----QLRNLSH 377
Query: 683 LQSLNLSGCFKLENVPETLGQVESLEELHISGTAIR----QPPSGIFHMKNLKAL----- 733
LQSLNLS L E + LE L ++ T ++ Q P H+ LK L
Sbjct: 378 LQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHL--LKVLNLSHS 435
Query: 734 --------YFRGCKGSPSSTSWSRHFPFNLIKRSLDPVAFSFPPSLSGLYSLTKLDLSDC 785
F G HFP I+++ SL L L L LS C
Sbjct: 436 LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKT---------NSLQTLGRLEILVLSFC 486
Query: 786 DLGEGFIPNDIGNLRSLKVLCLSNNSFVSLPASISRLSKLECLNLNGCKK-----LQSLP 840
DL + +L+ + + LS+N S +SI LS L+ + LN L SL
Sbjct: 487 DLS-SIDQHAFTSLKMMNHVDLSHNRLTS--SSIEALSHLKGIYLNLASNHISIILPSLL 543
Query: 841 PLPARMR 847
P+ ++ R
Sbjct: 544 PILSQQR 550
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 33.5 bits (75), Expect = 0.65, Method: Composition-based stats.
Identities = 36/148 (24%), Positives = 66/148 (44%), Gaps = 13/148 (8%)
Query: 572 GTAIGELPLSIELLSKLVSLDLNNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVE 631
G + E+P ++ + L+ N K P S K LR + LS + P+ +
Sbjct: 20 GKGLTEIPTNLPETITEIRLEQNTIKVIP--PGAFSPYKKLRRIDLSNNQISELAPDAFQ 77
Query: 632 SMEDLSELFLDGTSITEVPSSI---ELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNL 688
+ L+ L L G ITE+P S+ L +LN N L ++ + L +LNL
Sbjct: 78 GLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINXL-----RVDAFQDLHNLNL 132
Query: 689 SGCF--KLENVPE-TLGQVESLEELHIS 713
+ KL+ + + T + +++ +H++
Sbjct: 133 LSLYDNKLQTIAKGTFSPLRAIQTMHLA 160
Score = 30.4 bits (67), Expect = 5.7, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 768 PPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSLPASI 819
P + S L ++DLS+ + E P+ LRSL L L N LP S+
Sbjct: 49 PGAFSPYKKLRRIDLSNNQISE-LAPDAFQGLRSLNSLVLYGNKITELPKSL 99
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.5 bits (75), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 766 SFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSL-PASISRLSK 824
+F +GL SL L ++ E F+P+ LR+L L LS L P + + LS
Sbjct: 436 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 495
Query: 825 LECLNLNGCKKLQSLP 840
L+ LN+ +L+S+P
Sbjct: 496 LQVLNM-ASNQLKSVP 510
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 673 IPDSINGLKSLQSLNLSGCFKLENV-PETLGQVESLEELHISGTAIRQPPSGIF 725
+PD L++L L+LS C +LE + P + SL+ L+++ ++ P GIF
Sbjct: 462 LPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIF 514
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 54/119 (45%), Gaps = 6/119 (5%)
Query: 585 LSKLVSLDL--NNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVESMEDLSELFLD 642
L +L LD +N K V +S L+ L L +S F I + L L +
Sbjct: 395 LEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA 453
Query: 643 GTSITE--VPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLENVPE 699
G S E +P L L L+L+ C+ P + N L SLQ LN++ +L++VP+
Sbjct: 454 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASN-QLKSVPD 511
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 33.5 bits (75), Expect = 0.81, Method: Composition-based stats.
Identities = 40/147 (27%), Positives = 71/147 (48%), Gaps = 11/147 (7%)
Query: 572 GTAIGELPLSIELLSKLVSLDLNNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVE 631
G + E+P ++ + L+ N K P S K LR + LS + P+ +
Sbjct: 20 GKGLTEIPTNLPETITEIRLEQNTIKVIP--PGAFSPYKKLRRIDLSNNQISELAPDAFQ 77
Query: 632 SMEDLSELFLDGTSITEVPSSI-ELLTGLNVLNLNDCK-NLVRIPDSINGLKSLQSLNLS 689
+ L+ L L G ITE+P S+ E L L +L LN K N +R ++ + L +LNL
Sbjct: 78 GLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANKINCLR----VDAFQDLHNLNLL 133
Query: 690 GCF--KLENVPE-TLGQVESLEELHIS 713
+ KL+ + + T + +++ +H++
Sbjct: 134 SLYDNKLQTIAKGTFSPLRAIQTMHLA 160
Score = 32.3 bits (72), Expect = 1.5, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 36/83 (43%), Gaps = 12/83 (14%)
Query: 768 PPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSLPASI-------- 819
P + S L ++DLS+ + E P+ LRSL L L N LP S+
Sbjct: 49 PGAFSPYKKLRRIDLSNNQISE-LAPDAFQGLRSLNSLVLYGNKITELPKSLFEGLFSLQ 107
Query: 820 ---SRLSKLECLNLNGCKKLQSL 839
+K+ CL ++ + L +L
Sbjct: 108 LLLLNANKINCLRVDAFQDLHNL 130
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 66/268 (24%), Positives = 108/268 (40%), Gaps = 81/268 (30%)
Query: 471 LKVMKVSYSQSLIKIPDFTGV----PNLEKLYLEGCTRLREIHPSLLLHSKLVILNLTGC 526
+V + S S+I++ G+ L+ L LEG I +L +S LV LNL+GC
Sbjct: 93 FRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGC 152
Query: 527 TSLATLPGKIFMKSVKKLVLSGCSKLKKFPKIVGNMECLSKLLLDGTAIGELPLSIELLS 586
+ F + + +LS CS+L +
Sbjct: 153 SG--------FSEFALQTLLSSCSRLDE-------------------------------- 172
Query: 587 KLVSLDLNNCKNF--KNLPVTISSL-KCLRSLVLSGCSK-LKKFPEIVESMEDLSELFLD 642
L+L+ C +F K++ V ++ + + + L LSG K L+K DLS L
Sbjct: 173 ----LNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQK--------SDLSTL--- 217
Query: 643 GTSITEVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLENVPET-- 700
+ P+ + L +V+ NDC L LQ L+LS C+ + +PET
Sbjct: 218 ---VRRCPNLVHLDLSDSVMLKNDCFQ------EFFQLNYLQHLSLSRCYDI--IPETLL 266
Query: 701 -LGQVESLEELHISGTAIRQPPSGIFHM 727
LG++ +L+ L + G P G +
Sbjct: 267 ELGEIPTLKTLQVFGIV----PDGTLQL 290
>pdb|2FBM|A Chain A, Acetyltransferase Domain Of Cdy1
pdb|2FBM|B Chain B, Acetyltransferase Domain Of Cdy1
pdb|2FBM|C Chain C, Acetyltransferase Domain Of Cdy1
Length = 291
Score = 33.1 bits (74), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 4/86 (4%)
Query: 636 LSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLE 695
+S++FL GT EV I+ L N + L +CK LVR N L+ N C L
Sbjct: 201 VSQVFLTGTFTQEVMIQIKELASYNPIVLEECKALVR----CNIKLELEQANERECEVLR 256
Query: 696 NVPETLGQVESLEELHISGTAIRQPP 721
+ + +ES+ ++ + G PP
Sbjct: 257 KIWSSAQGIESMLKIPLLGYKAAFPP 282
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 58/135 (42%), Gaps = 27/135 (20%)
Query: 612 LRSLVLSGCSKLKKFPEIVESMEDLSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLV 671
L V C L + ++ M L EL T++ S +L N ++ ++ K
Sbjct: 336 LTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKG-- 393
Query: 672 RIPDSINGLKSLQSLNLSG---------CF------------KLENVPETLGQVESLEEL 710
+ KSL SLN+S C K++++P+ + ++E+L+EL
Sbjct: 394 ----DCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQEL 449
Query: 711 HISGTAIRQPPSGIF 725
+++ ++ P GIF
Sbjct: 450 NVASNQLKSVPDGIF 464
>pdb|1W5S|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp
Form)
pdb|1W5S|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein (Adp
Form)
pdb|1W5T|A Chain A, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
pdb|1W5T|B Chain B, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
pdb|1W5T|C Chain C, Structure Of The Aeropyrum Pernix Orc2 Protein
(Adpnp-Adp Complexes)
Length = 412
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 41 RFLMGTGSSDVRMI-GIWGMGGLGKTTLARVVYDSMS 76
R L G G SDV MI G G G+GKTTLA+ +S
Sbjct: 41 RLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVS 77
>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 = 32.0 bits (71), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 51/120 (42%), Gaps = 7/120 (5%)
Query: 585 LSKLVSLDL--NNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVESMEDLSELFLD 642
L +L LD +N K V +S L+ L L +S F I + L L +
Sbjct: 419 LEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA 477
Query: 643 GTSITE--VPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLS--GCFKLENVP 698
G S E +P L L L+L+ C+ P + N L SLQ LN+S F L+ P
Sbjct: 478 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 537
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 3/78 (3%)
Query: 766 SFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSL-PASISRLSK 824
+F +GL SL L ++ E F+P+ LR+L L LS L P + + LS
Sbjct: 460 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 519
Query: 825 LECLNL--NGCKKLQSLP 840
L+ LN+ N L + P
Sbjct: 520 LQVLNMSHNNFFSLDTFP 537
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 73/258 (28%), Positives = 113/258 (43%), Gaps = 48/258 (18%)
Query: 593 LNNCK--NFKNLPVT-ISSLKCLRSLV--LSGCSKLKKFPEIVESMEDLSELFLDGTSIT 647
LNN NF N +T I+ LK L LV L +++ + ++ +L+ L L IT
Sbjct: 62 LNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITPLA-NLTNLTGLTLFNNQIT 120
Query: 648 EVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLENVPETLGQVESL 707
++ ++ LT LN L L N + +++GL SLQ LN S + P L + +L
Sbjct: 121 DI-DPLKNLTNLNRLEL--SSNTISDISALSGLTSLQQLNFSSNQVTDLKP--LANLTTL 175
Query: 708 EELHISGTAIRQPPSGIFHMKNLKALYFRGCKGSPSSTSWSRHFPFNLIKRSLDPVAFSF 767
E L IS + S + + NL++L + S + P+
Sbjct: 176 ERLDISSNKVSD-ISVLAKLTNLESLIATNNQIS-----------------DITPLGI-- 215
Query: 768 PPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLC---LSNNSFVSLPASISRLSK 824
L +L +L L+ L DIG L SL L L+NN +L A +S L+K
Sbjct: 216 ------LTNLDELSLNGNQLK------DIGTLASLTNLTDLDLANNQISNL-APLSGLTK 262
Query: 825 LECLNLNGCKKLQSLPPL 842
L L L G ++ ++ PL
Sbjct: 263 LTELKL-GANQISNISPL 279
>pdb|2FW2|A Chain A, Catalytic Domain Of Cdy
pdb|2FW2|B Chain B, Catalytic Domain Of Cdy
pdb|2FW2|C Chain C, Catalytic Domain Of Cdy
pdb|2FW2|D Chain D, Catalytic Domain Of Cdy
pdb|2FW2|E Chain E, Catalytic Domain Of Cdy
pdb|2FW2|F Chain F, Catalytic Domain Of Cdy
Length = 260
Score = 31.6 bits (70), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%)
Query: 636 LSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVR 672
+S++FL GT EV I+ L N + L +CK LVR
Sbjct: 182 VSQVFLTGTFTQEVMIQIKELASYNAIVLEECKALVR 218
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 31.6 bits (70), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 23/101 (22%)
Query: 636 LSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLE 695
L+EL LDG IT+V ++ L GLN NL ++ S N + ++ + +L+
Sbjct: 194 LTELHLDGNKITKVDAAS--LKGLN--------NLAKLGLSFNSISAVDNGSLA------ 237
Query: 696 NVPETLGQVESLEELHISGTAIRQPPSGIFHMKNLKALYFR 736
N P L ELH++ + + P G+ K ++ +Y
Sbjct: 238 NTPH-------LRELHLNNNKLVKVPGGLADHKYIQVVYLH 271
>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 = 3.1, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 51/120 (42%), Gaps = 7/120 (5%)
Query: 585 LSKLVSLDL--NNCKNFKNLPVTISSLKCLRSLVLSGCSKLKKFPEIVESMEDLSELFLD 642
L +L LD +N K V +S L+ L L +S F I + L L +
Sbjct: 395 LEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMA 453
Query: 643 GTSITE--VPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLS--GCFKLENVP 698
G S E +P L L L+L+ C+ P + N L SLQ LN+S F L+ P
Sbjct: 454 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 513
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 37/78 (47%), Gaps = 3/78 (3%)
Query: 766 SFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSL-PASISRLSK 824
+F +GL SL L ++ E F+P+ LR+L L LS L P + + LS
Sbjct: 436 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 495
Query: 825 LECLNL--NGCKKLQSLP 840
L+ LN+ N L + P
Sbjct: 496 LQVLNMSHNNFFSLDTFP 513
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 48/101 (47%), Gaps = 23/101 (22%)
Query: 636 LSELFLDGTSITEVPSSIELLTGLNVLNLNDCKNLVRIPDSINGLKSLQSLNLSGCFKLE 695
L+EL LDG IT+V ++ L GLN NL ++ S N + ++ + +L+
Sbjct: 194 LTELHLDGNKITKVDAAS--LKGLN--------NLAKLGLSFNSISAVDNGSLA------ 237
Query: 696 NVPETLGQVESLEELHISGTAIRQPPSGIFHMKNLKALYFR 736
N P L ELH++ + + P G+ K ++ +Y
Sbjct: 238 NTPH-------LRELHLNNNKLVKVPGGLADHKYIQVVYLH 271
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 58/127 (45%), Gaps = 19/127 (14%)
Query: 616 VLSGCSKLKKFPEIVESMEDLSELFLDGTSITEVPSSIELL-TGLNVLNLNDCKNLVRIP 674
V GCS LK+ ++ L F +T+ SS+E L LN LN +
Sbjct: 369 VFQGCSTLKRLQTLILQRNGLKNFF-KVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWA 427
Query: 675 DSINGLKSLQSLNLSG----CF------------KLENVPETLGQVESLEELHISGTAIR 718
+SI L +L S L+G C ++ ++P+ + +++L+EL+++ ++
Sbjct: 428 ESILVL-NLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLK 486
Query: 719 QPPSGIF 725
P G+F
Sbjct: 487 SVPDGVF 493
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 30.8 bits (68), Expect = 4.1, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 24 PETIKELVGIESRLEKIRFLMGTGSS---DVRMIGIWGMGGLGKTTLARVV 71
P+T+ E +G E +K+R + + + + ++G GLGKTTLA V+
Sbjct: 8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVI 58
>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|E Chain E, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|F Chain F, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
Length = 462
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 54 IGIWGMGGLGKTTLARVVYDSMSYEFDGSSFLADVREKSEKEGS 97
IG++G G+GKT L + + ++++ E G S A V E++ +EG+
Sbjct: 147 IGLFGGAGVGKTVLIQELINNVAQEHGGLSVFAGVGERT-REGN 189
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 30.8 bits (68), Expect = 4.2, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 24 PETIKELVGIESRLEKIRFLMGTGSS---DVRMIGIWGMGGLGKTTLARVV 71
P+T+ E +G E +K+R + + + + ++G GLGKTTLA V+
Sbjct: 8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVI 58
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 30.8 bits (68), Expect = 4.4, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 3/51 (5%)
Query: 24 PETIKELVGIESRLEKIRFLMGTGSS---DVRMIGIWGMGGLGKTTLARVV 71
P+T+ E +G E +K+R + + + + ++G GLGKTTLA V+
Sbjct: 8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVI 58
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 30.8 bits (68), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 58/256 (22%), Positives = 111/256 (43%), Gaps = 34/256 (13%)
Query: 54 IGIWGMGGLGKTTL-ARVVYDSMSYE--FDGSSFLADVREKSEKEGSVIXXXXXXXXXXX 110
+ I+GM G GK+ L A V D E F G + K +K G ++
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIG-KQDKSGLLMKLQNLCMRLDQ 208
Query: 111 XXG-----DISIWHVEDGINIIGSRLRQKKVLLIIDDVADVEQLQSLAGKRDWFGPGSRI 165
++I +D + ++ R + + LLI+DDV D L++ F +I
Sbjct: 209 EESFSQRLPLNIEEAKDRLRVLMLR-KHPRSLLILDDVWDPWVLKA-------FDNQCQI 260
Query: 166 LITTRDKQLLVAHEVDEEHILNLDV-LNNDEALQLFSMKA-FKTHQPVGEYVELSERVLE 223
L+TTRDK + + + +H++ ++ L ++ L++ S+ K E + +++
Sbjct: 261 LLTTRDKSVTDS-VMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE----AHSIIK 315
Query: 224 YAGGLPLALKVLGSFLI---GRTA----DLWRSALERLKRDPSYKIMSI---LQISFDGL 273
G PL + ++G+ L R A L +R+++ SY ++ + IS + L
Sbjct: 316 ECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEML 375
Query: 274 QGSEKKIFLDVACFFK 289
+ K + D++ K
Sbjct: 376 REDIKDYYTDLSILQK 391
>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 473
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 54 IGIWGMGGLGKTTLARVVYDSMSYEFDGSSFLADVREKSEKEGS 97
IG++G G+GKT L + + +++ E G S A V E++ +EG+
Sbjct: 154 IGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERT-REGN 196
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 30.0 bits (66), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 41/95 (43%), Gaps = 4/95 (4%)
Query: 608 SLKCLRSLVLSGCSKLKKFPEIVESMEDLSELFLDGTSITE--VPSSIELLTGLNVLNLN 665
SL+ L L +S F I + L L + G S E +P L L L+L+
Sbjct: 124 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLS 183
Query: 666 DCKNLVRIPDSINGLKSLQSLNLS--GCFKLENVP 698
C+ P + N L SLQ LN+S F L+ P
Sbjct: 184 QCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 218
Score = 30.0 bits (66), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 1/67 (1%)
Query: 766 SFPPSLSGLYSLTKLDLSDCDLGEGFIPNDIGNLRSLKVLCLSNNSFVSL-PASISRLSK 824
+F +GL SL L ++ E F+P+ LR+L L LS L P + + LS
Sbjct: 141 AFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 200
Query: 825 LECLNLN 831
L+ LN++
Sbjct: 201 LQVLNMS 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
0.319 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,477,262
Number of Sequences: 62578
Number of extensions: 1451678
Number of successful extensions: 3381
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 3249
Number of HSP's gapped (non-prelim): 118
length of query: 1170
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1060
effective length of database: 8,089,757
effective search space: 8575142420
effective search space used: 8575142420
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (26.6 bits)