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= 001161
(1134 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 = 134 bits (337), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 77/166 (46%), Positives = 101/166 (60%), Gaps = 4/166 (2%)
Query: 16 TNPEVQYDVFLSFRGEDTRENFTSHLYSALSRESIETFIDD-DLRRGDEISQSLLDAIEA 74
++ +YDVFLSFRG DTR NF S LY L R SI TF DD +L G S L IE
Sbjct: 3 SHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEV 62
Query: 75 SSISIIVFSERYASSRWCLDELLKILECKKEYAQIVIPACYRVDPSHVRKQTGNFGDSFL 134
S +++V SE YA+S WCLDEL+ I++ +K+ + V+P Y V+P+HVR QTG + F
Sbjct: 63 SRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFK 122
Query: 135 KLGERF-PDKMQSWRNALTEAADLSGFDSRVYRTESALIEEIVNAI 179
K R P+K+ WR ALT A LSG S +S L+++I N I
Sbjct: 123 KHASREDPEKVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEI 166
>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 = 129 bits (323), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 74/177 (41%), Positives = 107/177 (60%), Gaps = 5/177 (2%)
Query: 10 HPHGSLTNPEVQYDVFLSFRGEDTRENFTSHLYSALSRESIETFIDDD-LRRGDEISQSL 68
+P GS P V+Y+VFLSFRG DTRE FT LY +L R I TF DDD L +G EI +L
Sbjct: 26 NPSGSF--PSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNL 83
Query: 69 LDAIEASSISIIVFSERYASSRWCLDELLKILECKKEYA-QIVIPACYRVDPSHVRKQTG 127
L AI+ S I + + S YA S+WCL EL +I+ ++E +I++P Y VDPS VR QTG
Sbjct: 84 LRAIDQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTG 143
Query: 128 NFGDSFLKLGERFPDK-MQSWRNALTEAADLSGFDSRVYRTESALIEEIVNAILKRV 183
+ +F K +F + +Q+W++AL + DL G+ + A+ +++ I +
Sbjct: 144 CYKKAFRKHANKFDGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHI 200
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 66/213 (30%), Positives = 100/213 (46%), Gaps = 18/213 (8%)
Query: 704 NIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNIDGCSNL 763
+++ +D L ELP + + + L L LA L++LP+ + L L L+I C L
Sbjct: 105 HLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIASLNRLRELSIRACPEL 163
Query: 764 QRLPEELGYLEA---------LDSLHAVGTAIRELPPSIVRLKSVRAIYFGRNRGLSLPI 814
LPE L +A L SL T IR LP SI L++++++ RN LS +
Sbjct: 164 TELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKI-RNSPLSA-L 221
Query: 815 TFSVDGLQNLRDLNLNDC-GITELPESLGLLSLVTELHLEG-NNFERIPESIIQLSNLEW 872
++ L L +L+L C + P G + + L L+ +N +P I +L+ LE
Sbjct: 222 GPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEK 281
Query: 873 LFIRYCERLQSLP----KLPCNLIWLDAHHCTA 901
L +R C L LP +LP N I L H A
Sbjct: 282 LDLRGCVNLSRLPSLIAQLPANCIILVPPHLQA 314
Score = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/123 (34%), Positives = 56/123 (45%), Gaps = 28/123 (22%)
Query: 655 QHLNKLAILN--LSGCGNLQSLPDRIHLELLKELNLSGCSKLKRLPEISSGNIETMHLDG 712
Q+L L I N LS G P HL L+EL+L GC+ L+ P I G
Sbjct: 206 QNLKSLKIRNSPLSALG-----PAIHHLPKLEELDLRGCTALRNYPPIFGGR-------- 252
Query: 713 TALEELPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNIDGCSNLQRLPEELGY 772
+ L RL L DC +L +LP + +L L+ L++ GC NL RLP +
Sbjct: 253 -------------APLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQ 299
Query: 773 LEA 775
L A
Sbjct: 300 LPA 302
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 52/193 (26%), Positives = 87/193 (45%), Gaps = 17/193 (8%)
Query: 619 SNIEQLFDIVQNHGKLYQIITAAFNFFSKTPTPLSTQHLNKLAILNLSGCGNLQSLPDRI 678
+ + +L D Q L + +T A N P +++ LN+L L++ C L LP+ +
Sbjct: 114 AGLXELPDTXQQFAGL-ETLTLARNPLRALPASIAS--LNRLRELSIRACPELTELPEPL 170
Query: 679 --------HLEL--LKELNLSGCSKLKRLPEISSG--NIETMHLDGTALEELPSSIECLS 726
H L L+ L L + ++ LP + N++++ + + L L +I L
Sbjct: 171 ASTDASGEHQGLVNLQSLRLE-WTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLP 229
Query: 727 KLSRLDLADCKSLKSLPSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAVGTA- 785
KL LDL C +L++ P L L + CSNL LP ++ L L+ L G
Sbjct: 230 KLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVN 289
Query: 786 IRELPPSIVRLKS 798
+ LP I +L +
Sbjct: 290 LSRLPSLIAQLPA 302
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 33/66 (50%)
Query: 821 LQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFERIPESIIQLSNLEWLFIRYCER 880
L +L+ ++ G+ ELP++ + + L L N +P SI L+ L L IR C
Sbjct: 103 LSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPE 162
Query: 881 LQSLPK 886
L LP+
Sbjct: 163 LTELPE 168
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 61/189 (32%), Positives = 85/189 (44%), Gaps = 34/189 (17%)
Query: 694 LKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSLPSGLCKL---- 749
L LP + SG + + + G L LP L +LS D SL +LPS LCKL
Sbjct: 113 LTHLPALPSG-LCKLWIFGNQLTSLPVLPPGLQELSVSD-NQLASLPALPSELCKLWAYN 170
Query: 750 ----------KSLDVLNI--DGCSNLQRLPEEL----GYLEALDSLHAVGTAIRELPPSI 793
L L++ + ++L LP EL Y L SL A+ + ++EL S
Sbjct: 171 NQLTSLPMLPSGLQELSVSDNQLASLPTLPSELYKLWAYNNRLTSLPALPSGLKELIVSG 230
Query: 794 VRLKSV-------RAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSL 846
RL S+ + + NR SLP+ S L L++ +T LPESL LS
Sbjct: 231 NRLTSLPVLPSELKELMVSGNRLTSLPMLPS-----GLLSLSVYRNQLTRLPESLIHLSS 285
Query: 847 VTELHLEGN 855
T ++LEGN
Sbjct: 286 ETTVNLEGN 294
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 43.1 bits (100), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 48/155 (30%), Positives = 76/155 (49%), Gaps = 7/155 (4%)
Query: 705 IETMHLDGTALEELPS-SIECLSKLSRLDLADCKSLKSLPSGLCK-LKSLDVLNIDGCSN 762
+ + L +E +PS + + L RLDL + K L+ + G + L +L LN+ C N
Sbjct: 149 LRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMC-N 207
Query: 763 LQRLPEELGYLEALDSLHAVGTAIREL-PPSIVRLKSVRAIYFGRNRGLSLPITFSVDGL 821
++ +P L L L+ L G E+ P S L S++ ++ N +SL + DGL
Sbjct: 208 IKDMPN-LTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWV-MNSQVSLIERNAFDGL 265
Query: 822 QNLRDLNLNDCGITELPESL-GLLSLVTELHLEGN 855
+L +LNL ++ LP L L + ELHL N
Sbjct: 266 ASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHHN 300
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 52/106 (49%), Gaps = 3/106 (2%)
Query: 772 YLEALDSLHAVGTAIRELPP-SIVRLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLN 830
YL L L I +P + R+ S+ + G + L + +GL NL+ LNL
Sbjct: 145 YLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLG 204
Query: 831 DCGITELPESLGLLSLVTELHLEGNNFERI-PESIIQLSNLEWLFI 875
C I ++P L+ L EL + GN+F I P S LS+L+ L++
Sbjct: 205 MCNIKDMPNLTPLVGL-EELEMSGNHFPEIRPGSFHGLSSLKKLWV 249
>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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 70/241 (29%), Positives = 108/241 (44%), Gaps = 49/241 (20%)
Query: 690 GCSKLKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSLPSGLCKL 749
S+L+ + + +E +L ++L ELP +E L +A C SL LP L
Sbjct: 61 AVSRLRDCLDRQAHELELNNLGLSSLPELPPHLESL-------VASCNSLTELPELPQSL 113
Query: 750 KSLDVLNID--------------GCSN--LQRLPE--ELGYLEALDSLHAVGTAIRELPP 791
KSL V N + G SN L++LPE +L+ +D + + +LPP
Sbjct: 114 KSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPP 173
Query: 792 SIVRLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPE-SLGLLSLVTEL 850
S+ I G N+ LP + L L + ++ + +LP+ L L S+V
Sbjct: 174 SL------EFIAAGNNQLEELP---ELQNLPFLTAIYADNNSLKKLPDLPLSLESIVA-- 222
Query: 851 HLEGNN-FERIPESIIQLSNLEWLFIRYCER--LQSLPKLPCNLIWLDA--HHCTALESL 905
GNN E +PE L NL +L Y + L++LP LP +L L+ ++ T L L
Sbjct: 223 ---GNNILEELPE----LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPEL 275
Query: 906 P 906
P
Sbjct: 276 P 276
Score = 35.8 bits (81), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 78/277 (28%), Positives = 114/277 (41%), Gaps = 61/277 (22%)
Query: 667 GCGN--LQSLPDRIHLELLKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIEC 724
G N L+ LP+ + LK +++ S LK+LP++ +E + LEELP ++
Sbjct: 137 GVSNNQLEKLPELQNSSFLKIIDVDNNS-LKKLPDLPPS-LEFIAAGNNQLEELPE-LQN 193
Query: 725 LSKLSRLDLADCKSLKSLP----------------SGLCKLKSLDVLNIDGCSN--LQRL 766
L L+ + AD SLK LP L +L++L L N L+ L
Sbjct: 194 LPFLTAI-YADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTL 252
Query: 767 PEELGYLEALDSLHAVGTAIRELPPSIVRLKSVRAIYFGRNR---------GLSLPITFS 817
P+ LEAL+ T + ELP S+ L I+ G + S I
Sbjct: 253 PDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSL 312
Query: 818 VDGLQNLRDLNLNDCGITELP----------ESLGLLSLVTE-------LHLEGN---NF 857
D +L +LN+++ + ELP S L+ V E LH+E N F
Sbjct: 313 CDLPPSLEELNVSNNKLIELPALPPRLERLIASFNHLAEVPELPQNLKQLHVEYNPLREF 372
Query: 858 ERIPESIIQLSNLEWLFIRYCERLQSLPKLPCNLIWL 894
IPES+ L R L +P+LP NL L
Sbjct: 373 PDIPESVEDL--------RMNSHLAEVPELPQNLKQL 401
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/135 (31%), Positives = 65/135 (48%), Gaps = 8/135 (5%)
Query: 744 SGLCKLKSLDVLNIDGCSNLQRLPE-ELGYLEALDSLHAVGTAIRELPP-SIVRLKSVRA 801
+GL L +L++ + + L +P YL L L I +P + R+ S+R
Sbjct: 109 NGLANLNTLELFD----NRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRR 164
Query: 802 IYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFERI- 860
+ G + LS + +GL NLR LNL C + E+P L+ L EL L GN+ I
Sbjct: 165 LDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIKL-DELDLSGNHLSAIR 223
Query: 861 PESIIQLSNLEWLFI 875
P S L +L+ L++
Sbjct: 224 PGSFQGLMHLQKLWM 238
Score = 34.7 bits (78), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 58/207 (28%), Positives = 94/207 (45%), Gaps = 33/207 (15%)
Query: 653 STQHLNKLAILNLSGCGNLQSLPDRIHLELLKELNLSGCSKLK-------RLPEISSG-- 703
S +HL L IL LS R H+ ++ +G + L RL I +G
Sbjct: 83 SFKHLRHLEILQLS----------RNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAF 132
Query: 704 ----NIETMHLDGTALEELPS-SIECLSKLSRLDLADCKSLKSLPSGLCK-LKSLDVLNI 757
++ + L +E +PS + + L RLDL + K L + G + L +L LN+
Sbjct: 133 VYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNL 192
Query: 758 DGCSNLQRLPEELGYLEALDSLHAVG---TAIRELPPSIVRLKSVRAIYFGRNRGLSLPI 814
C NL+ +P L L LD L G +AIR P S L ++ ++ +++ + +
Sbjct: 193 AMC-NLREIPN-LTPLIKLDELDLSGNHLSAIR--PGSFQGLMHLQKLWMIQSQ-IQVIE 247
Query: 815 TFSVDGLQNLRDLNLNDCGITELPESL 841
+ D LQ+L ++NL +T LP L
Sbjct: 248 RNAFDNLQSLVEINLAHNNLTLLPHDL 274
>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 = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 30/126 (23%), Positives = 53/126 (42%), Gaps = 6/126 (4%)
Query: 13 GSLTNPEVQ----YDVFLSFRGEDTRENFTSHLYSALSRESIETFIDD-DLRRGDEISQS 67
G TN ++ +D+F+S ED + +F L L E + DD LR GD + +S
Sbjct: 8 GPTTNADLTSAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRS 66
Query: 68 LLDAIEASSISIIVFSERYASSRWCLDELLKILECKKEYAQIVIPACYRVDPSHVRKQTG 127
+ + +S I+V S + W EL + + + ++P ++V V +
Sbjct: 67 IDKGLGSSRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSP 126
Query: 128 NFGDSF 133
D
Sbjct: 127 TMADKL 132
>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 = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 67/139 (48%), Gaps = 8/139 (5%)
Query: 744 SGLCKLKSLDVLNIDGCSNLQRLP-EELGYLEALDSLHAVGTAIRELPP-SIVRLKSVRA 801
+GL L +L++ + + L +P + YL L L I +P + R+ S+R
Sbjct: 80 NGLPSLNTLELFD----NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRR 135
Query: 802 IYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFERI- 860
+ G + L + +GL NLR LNL C + ++P L+ L EL L GN + I
Sbjct: 136 LDLGELKRLEYISEAAFEGLVNLRYLNLGMCNLKDIPNLTALVRL-EELELSGNRLDLIR 194
Query: 861 PESIIQLSNLEWLFIRYCE 879
P S L++L L++ + +
Sbjct: 195 PGSFQGLTSLRKLWLMHAQ 213
Score = 33.1 bits (74), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 53/203 (26%), Positives = 87/203 (42%), Gaps = 29/203 (14%)
Query: 655 QHLNKLAILNLSG-------CGNLQSLPDRIHLELLKELNLSGCSKLKRLPEIS---SGN 704
+HL L IL LS G LP LEL ++L +P +
Sbjct: 56 KHLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFD-------NRLTTVPTQAFEYLSK 108
Query: 705 IETMHLDGTALEELPS-SIECLSKLSRLDLADCKSLKSLPS----GLCKLKSLDVLNIDG 759
+ + L +E +PS + + L RLDL + K L+ + GL L+ L++ G
Sbjct: 109 LRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNL----G 164
Query: 760 CSNLQRLPEELGYLEALDSLHAVGTAIREL-PPSIVRLKSVRAIYFGRNRGLSLPITFSV 818
NL+ +P L L L+ L G + + P S L S+R ++ + ++ +
Sbjct: 165 MCNLKDIPN-LTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERN-AF 222
Query: 819 DGLQNLRDLNLNDCGITELPESL 841
D L++L +LNL+ + LP L
Sbjct: 223 DDLKSLEELNLSHNNLMSLPHDL 245
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/139 (28%), Positives = 67/139 (48%), Gaps = 8/139 (5%)
Query: 744 SGLCKLKSLDVLNIDGCSNLQRLP-EELGYLEALDSLHAVGTAIRELPP-SIVRLKSVRA 801
+GL L +L++ + + L +P + YL L L I +P + R+ S+R
Sbjct: 80 NGLPSLNTLELFD----NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRR 135
Query: 802 IYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFERI- 860
+ G + L + +GL NLR LNL C + ++P L+ L EL L GN + I
Sbjct: 136 LDLGELKRLEYISEAAFEGLVNLRYLNLGMCNLKDIPNLTALVRL-EELELSGNRLDLIR 194
Query: 861 PESIIQLSNLEWLFIRYCE 879
P S L++L L++ + +
Sbjct: 195 PGSFQGLTSLRKLWLMHAQ 213
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 53/203 (26%), Positives = 87/203 (42%), Gaps = 29/203 (14%)
Query: 655 QHLNKLAILNLSG-------CGNLQSLPDRIHLELLKELNLSGCSKLKRLPEIS---SGN 704
+HL L IL LS G LP LEL ++L +P +
Sbjct: 56 KHLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFD-------NRLTTVPTQAFEYLSK 108
Query: 705 IETMHLDGTALEELPS-SIECLSKLSRLDLADCKSLKSLPS----GLCKLKSLDVLNIDG 759
+ + L +E +PS + + L RLDL + K L+ + GL L+ L++ G
Sbjct: 109 LRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNL----G 164
Query: 760 CSNLQRLPEELGYLEALDSLHAVGTAIREL-PPSIVRLKSVRAIYFGRNRGLSLPITFSV 818
NL+ +P L L L+ L G + + P S L S+R ++ + ++ +
Sbjct: 165 MCNLKDIPN-LTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERN-AF 222
Query: 819 DGLQNLRDLNLNDCGITELPESL 841
D L++L +LNL+ + LP L
Sbjct: 223 DDLKSLEELNLSHNNLMSLPHDL 245
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 39.3 bits (90), Expect = 0.011, Method: Composition-based stats.
Identities = 48/159 (30%), Positives = 79/159 (49%), Gaps = 10/159 (6%)
Query: 680 LELLKELNLSGCSKLKRLPEISS---GNIETMHLDGTALEEL-PSSIECLSKLSRLDLAD 735
L LL++L+LS ++L+ + + G + T+HLD L+EL P L+ L L L D
Sbjct: 78 LALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD 137
Query: 736 CKSLKSLPSGLCK-LKSLDVLNIDGCSNLQRLPEE-LGYLEALDSLHAVGTAIRELPPSI 793
+L++LP + L +L L + G + + +PE L +LD L + + P
Sbjct: 138 -NALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHA 195
Query: 794 VR-LKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLND 831
R L + +Y N +LP T ++ L+ L+ L LND
Sbjct: 196 FRDLGRLMTLYLFANNLSALP-TEALAPLRALQYLRLND 233
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 38.9 bits (89), Expect = 0.015, Method: Composition-based stats.
Identities = 48/159 (30%), Positives = 79/159 (49%), Gaps = 10/159 (6%)
Query: 680 LELLKELNLSGCSKLKRLPEISS---GNIETMHLDGTALEEL-PSSIECLSKLSRLDLAD 735
L LL++L+LS ++L+ + + G + T+HLD L+EL P L+ L L L D
Sbjct: 79 LALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD 138
Query: 736 CKSLKSLPSGLCK-LKSLDVLNIDGCSNLQRLPEE-LGYLEALDSLHAVGTAIRELPPSI 793
+L++LP + L +L L + G + + +PE L +LD L + + P
Sbjct: 139 -NALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHA 196
Query: 794 VR-LKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLND 831
R L + +Y N +LP T ++ L+ L+ L LND
Sbjct: 197 FRDLGRLMTLYLFANNLSALP-TEALAPLRALQYLRLND 234
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 37.4 bits (85), Expect = 0.048, Method: Composition-based stats.
Identities = 48/159 (30%), Positives = 78/159 (49%), Gaps = 10/159 (6%)
Query: 680 LELLKELNLSGCSKLKRLPEISS---GNIETMHLDGTALEEL-PSSIECLSKLSRLDLAD 735
L LL++L+LS ++L+ + + G++ T+HLD L+EL P L+ L L L D
Sbjct: 78 LTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQD 137
Query: 736 CKSLKSLPSGLCK-LKSLDVLNIDGCSNLQRLPEE-LGYLEALDSLHAVGTAIRELPPSI 793
+L++LP + L +L L + G + + +PE L +LD L + + P
Sbjct: 138 -NNLQALPDNTFRDLGNLTHLFLHG-NRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHA 195
Query: 794 VR-LKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLND 831
R L + +Y N LP V L++L+ L LND
Sbjct: 196 FRDLGRLMTLYLFANNLSMLPAEVLVP-LRSLQYLRLND 233
>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 = 37.0 bits (84), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 57/111 (51%), Gaps = 9/111 (8%)
Query: 708 MHLDGTALEELPSSIECLSKLSRLDLADCKSLKSLPS--GLC-KLKSLDVLNIDGCSNLQ 764
++L+G +L ELP+ I+ LS L LDL+ + L SLP+ G C +LK + + +
Sbjct: 252 LYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFD----NMVT 306
Query: 765 RLPEELGYLEALDSLHAVGTAIRELPPSIVRLKSVRA-IYFGRNRGLSLPI 814
LP E G L L L G + + I+ KSV I++ R+ +P+
Sbjct: 307 TLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNRPEIPL 357
Score = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 31/129 (24%), Positives = 52/129 (40%), Gaps = 3/129 (2%)
Query: 748 KLKSLDVLNIDGCSNLQRLPEELGYLEAL-DSLHAVGTAIRELPPSIVRLKSVRAIYFGR 806
KL + D N +P++ Y + L +L I + +I + + +Y
Sbjct: 197 KLSQYSIDEDDDIENRMVMPKDSKYDDQLWHALDLSNLQIFNISANIFKYDFLTRLYLNG 256
Query: 807 NRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFERIPESIIQ 866
N LP + L NLR L+L+ +T LP LG + + N +P
Sbjct: 257 NSLTELPA--EIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGN 314
Query: 867 LSNLEWLFI 875
L NL++L +
Sbjct: 315 LCNLQFLGV 323
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 1/59 (1%)
Query: 827 LNLNDCGITELPESLGLLSLVTELHLEGNNFERIPESIIQLSNLEWLFIRYCERLQSLP 885
L+L++ I + ++ +T L+L GN+ +P I LSNL L + + RL SLP
Sbjct: 229 LDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLP 286
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 52/169 (30%), Positives = 82/169 (48%), Gaps = 22/169 (13%)
Query: 795 RLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGL---LSLVTELH 851
RL +R +Y N+ +LP + L+NL L + D + LP +G+ L + EL
Sbjct: 59 RLTKLRLLYLNDNKLQTLPAGIFKE-LKNLETLWVTDNKLQALP--IGVFDQLVNLAELR 115
Query: 852 LEGNNFERIPESII-QLSNLEWLFIRYCERLQSLPKLP----CNLIWLDAHHCTALESLP 906
L+ N + +P + L+ L +L + Y E LQSLPK +L L ++ L+ +P
Sbjct: 116 LDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLTSLKELRLYN-NQLKRVP 173
Query: 907 -GLFPSSNESYLRTLYLSDNFKLDPNDLGGIVKGALQKIQLLATARLKE 954
G F E L+TL KLD N L + +GA ++ L +L+E
Sbjct: 174 EGAFDKLTE--LKTL------KLDNNQLKRVPEGAFDSLEKLKMLQLQE 214
>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 = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 53/209 (25%), Positives = 91/209 (43%), Gaps = 36/209 (17%)
Query: 243 FAGSFFARNVREAEETGRLGDLRQQLLSTLLNDGNVKNFPNIDLNFQSKKLTRKKVLIVF 302
F G +V + +++G L L Q L + L D + + LN + K R ++L++
Sbjct: 178 FPGGVHWVSVGKQDKSGLLMKL-QNLCTRLDQDESFSQ--RLPLNIEEAK-DRLRILML- 232
Query: 303 DDVNHPRQIKILVGRLD-----LLASGSRIIITTRDRQVLANCGVDEVYQMKELV----- 352
HPR + IL D S +I++TTRD+ V D V K +V
Sbjct: 233 --RKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSV-----TDSVMGPKYVVPVESS 285
Query: 353 --HDDALRLFSR--HAFEGDHPHESHTELACKIIKYARGVPLALEVLGRYL--YGKRREV 406
+ L + S + + D P ++H+ IIK +G PL + ++G L + R
Sbjct: 286 LGKEKGLEILSLFVNMKKADLPEQAHS-----IIKECKGSPLVVSLIGALLRDFPNR--- 337
Query: 407 WENAISKWETAPPKGIQDALKISYDGLDD 435
WE + + + K I+ + Y+ LD+
Sbjct: 338 WEYYLKQLQNKQFKRIRKSSSYDYEALDE 366
>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 = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 53/209 (25%), Positives = 91/209 (43%), Gaps = 36/209 (17%)
Query: 243 FAGSFFARNVREAEETGRLGDLRQQLLSTLLNDGNVKNFPNIDLNFQSKKLTRKKVLIVF 302
F G +V + +++G L L Q L + L D + + LN + K R ++L++
Sbjct: 184 FPGGVHWVSVGKQDKSGLLMKL-QNLCTRLDQDESFSQ--RLPLNIEEAK-DRLRILML- 238
Query: 303 DDVNHPRQIKILVGRLD-----LLASGSRIIITTRDRQVLANCGVDEVYQMKELV----- 352
HPR + IL D S +I++TTRD+ V D V K +V
Sbjct: 239 --RKHPRSLLILDDVWDSWVLKAFDSQCQILLTTRDKSV-----TDSVMGPKYVVPVESS 291
Query: 353 --HDDALRLFS--RHAFEGDHPHESHTELACKIIKYARGVPLALEVLGRYL--YGKRREV 406
+ L + S + + D P ++H+ IIK +G PL + ++G L + R
Sbjct: 292 LGKEKGLEILSLFVNMKKADLPEQAHS-----IIKECKGSPLVVSLIGALLRDFPNR--- 343
Query: 407 WENAISKWETAPPKGIQDALKISYDGLDD 435
WE + + + K I+ + Y+ LD+
Sbjct: 344 WEYYLKQLQNKQFKRIRKSSSYDYEALDE 372
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 34.7 bits (78), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 60/119 (50%), Gaps = 5/119 (4%)
Query: 770 LGYLEALDSLHAVGTAIRELPPSIV-RLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLN 828
L L L L G ++ LP + +L +++ + N+ SLP D L NL LN
Sbjct: 81 LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGV-FDKLTNLTYLN 139
Query: 829 LNDCGITELPESL-GLLSLVTELHLEGNNFERIPESII-QLSNLEWLFIRYCERLQSLP 885
L + LP+ + L+ +TEL L N + +PE + +L+ L+ L + Y +L+S+P
Sbjct: 140 LAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL-YQNQLKSVP 197
>pdb|3L0G|A Chain A, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
Resolution
pdb|3L0G|B Chain B, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
Resolution
pdb|3L0G|C Chain C, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
Resolution
pdb|3L0G|D Chain D, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Ehrlichia Chaffeensis At 2.05a
Resolution
Length = 300
Score = 34.3 bits (77), Expect = 0.37, Method: Composition-based stats.
Identities = 20/97 (20%), Positives = 52/97 (53%), Gaps = 3/97 (3%)
Query: 664 NLSGCGNLQSLPDRIHLELLKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIE 723
+++ CG++ R+ L E C + ++ E S N++ + LD ++ E+ +++
Sbjct: 187 HIASCGSITLAIQRLRKNLKNEYIAIECDNISQVEESLSNNVDMILLDNMSISEIKKAVD 246
Query: 724 CLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNIDGC 760
++ S L+++ C +++++ + L +D ++I GC
Sbjct: 247 IVNGKSVLEVSGCVNIRNVRN--IALTGVDYISI-GC 280
>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 = 33.9 bits (76), Expect = 0.53, Method: Composition-based stats.
Identities = 42/156 (26%), Positives = 73/156 (46%), Gaps = 11/156 (7%)
Query: 727 KLSRLDLADCKSLKS--LPSGLCKLKSLDVLNIDGCSNL-QRLPEELGYLEALDSLHAVG 783
+++ LDL+ K +PS L L L+ L I G +NL +P + L L L+
Sbjct: 51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH 110
Query: 784 TAIR-ELPPSIVRLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGIT-ELPESL 841
T + +P + ++K++ + F N LS + S+ L NL + + I+ +P+S
Sbjct: 111 TNVSGAIPDFLSQIKTLVTLDFSYN-ALSGTLPPSISSLPNLVGITFDGNRISGAIPDSY 169
Query: 842 GLLS-LVTELHLEGNNFE-RIPESIIQLSNLEWLFI 875
G S L T + + N +IP + +NL F+
Sbjct: 170 GSFSKLFTSMTISRNRLTGKIPPT---FANLNLAFV 202
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 33.5 bits (75), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 76/342 (22%), Positives = 137/342 (40%), Gaps = 71/342 (20%)
Query: 243 FAGSFFARNVREAEETGRLGDLRQQLLSTLLNDGNVKNFPNIDLNFQSKKLTRKKVLIVF 302
F+G ++ + +++G L L+ + + + P LN + K R +VL++
Sbjct: 178 FSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLP---LNIEEAK-DRLRVLML- 232
Query: 303 DDVNHPRQIKILVGRLD-----LLASGSRIIITTRDRQVLANCGVDEVYQMKELVHDDA- 356
HPR + IL D + +I++TTRD+ V D V K +V ++
Sbjct: 233 --RKHPRSLLILDDVWDPWVLKAFDNQCQILLTTRDKSV-----TDSVMGPKHVVPVESG 285
Query: 357 ---------LRLFSRHAFEGDHPHESHTELACKIIKYARGVPLALEVLG--------RYL 399
L LF E D P E+H+ IIK +G PL + ++G R+
Sbjct: 286 LGREKGLEILSLFVNMKKE-DLPAEAHS-----IIKECKGSPLVVSLIGALLRDFPNRWA 339
Query: 400 YGKRREVWENA----ISKWETAPPKGIQDALKISYDGLDDKEQNVFLDIA---------- 445
Y R+ +N I K + + + +A+ IS + L + ++ + D++
Sbjct: 340 YYLRQ--LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPT 397
Query: 446 ---CFFIDDDRDTVTKFLDD--------CEFFATSGIEVLVDKHLITISVRNKIKMHDLL 494
C D + + V L + C S L D + ++ +N+ ++ DL
Sbjct: 398 KVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQLQDLH 457
Query: 495 RAMGREIVR--QESTNDPGKRSRL-WHHKEVYKILSENRGTE 533
R M + R Q T P + + W++ Y + S N E
Sbjct: 458 RKMVTQFQRYYQPHTLSPDQEDCMYWYNFLAYHMASANMHKE 499
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 42/81 (51%), Gaps = 5/81 (6%)
Query: 704 NIETMHLDGTALEE--LPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNIDGCS 761
++E + + G + +E LP L L+ LDL+ C+ + P+ L SL VLN+ +
Sbjct: 446 SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM-ASN 504
Query: 762 NLQRLPEELGYLEALDSLHAV 782
L+ +P+ G + L SL +
Sbjct: 505 QLKSVPD--GIFDRLTSLQKI 523
>pdb|3SYJ|A Chain A, Crystal Structure Of The Haemophilus Influenzae Hap
Adhesin
Length = 1011
Score = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 32/81 (39%), Gaps = 22/81 (27%)
Query: 588 EVRYLHWHGYPLKSLPSNIHPEKLVLLEMPYSNIEQLF---------DIVQNHGKLYQII 638
E+ Y W G K N H +L L+ P + L DI Q GKL
Sbjct: 536 EIAYNGWFGETDK----NKHNGRLNLIYKPTTEDRTLLLSGGTNLKGDITQTKGKL---- 587
Query: 639 TAAFNFFSKTPTPLSTQHLNK 659
FFS PTP + HLNK
Sbjct: 588 -----FFSGRPTPHAYNHLNK 603
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 70/296 (23%), Positives = 128/296 (43%), Gaps = 37/296 (12%)
Query: 550 LHPNVFAKMPNLRILKFYNSMDEENKCKVSHFQGSEFT--EVRYLHWHGYPLKSLPSNIH 607
L P F + NLR L + +++ SH +F+ ++YL + ++PS
Sbjct: 287 LSPRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLKYLEYLNMDDNNIPSTKS 346
Query: 608 PEKLVLLEMPYSNIEQLFDIVQNHGKLYQIITAAFNFFSKTPT---PLSTQHLNKLAILN 664
L+ + Y ++ + F +Q + F + +P L+ H++K+A
Sbjct: 347 NTFTGLVSLKYLSLSKTFTSLQ------TLTNETFVSLAHSPLLTLNLTKNHISKIANGT 400
Query: 665 LSGCGNLQSLPDRIHLELLKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIEC 724
S G L+ L ++ E+ ++L+ L+ + EI + + L ++ +PS
Sbjct: 401 FSWLGQLRILDLGLN-EIEQKLSGQEWRGLRNIFEIYLSYNKYLQLSTSSFALVPS---- 455
Query: 725 LSKLSRLDL--ADCKSLKSLPSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAV 782
L RL L K++ PS L++L +L++ +N+ + E+L LE L++L +
Sbjct: 456 ---LQRLMLRRVALKNVDISPSPFRPLRNLTILDLSN-NNIANINEDL--LEGLENLEIL 509
Query: 783 GTAIRELPPSIVRLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELP 838
L RL RA G P+ F + GL +L LNL G+ E+P
Sbjct: 510 DFQHNNL----ARLWK-RANPGG-------PVNF-LKGLSHLHILNLESNGLDEIP 552
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 76/164 (46%), Gaps = 21/164 (12%)
Query: 652 LSTQHLNKLAILNLSGCGNLQSLPDRIH-LELLKELNLS-----GCSKLK----RLP--E 699
LS +L L + L C N LPD ++ L L+ LN++ ++LK RL E
Sbjct: 485 LSWSNLKDLTDVELYNCPNXTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDE 544
Query: 700 ISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADC--KSLKSLPSGLCKLKSLDVLNI 757
+ I+ + LEE P+S L K +L L DC ++ L + +K D L +
Sbjct: 545 DTGPKIQIFYXGYNNLEEFPAS-ASLQKXVKLGLLDCVHNKVRHLEAFGTNVKLTD-LKL 602
Query: 758 DGCSNLQRLPEELGYLEALDSLHAVGTAIRELP--PSIVRLKSV 799
D + ++ +PE+ + D + +G + +L P+I KSV
Sbjct: 603 D-YNQIEEIPED--FCAFTDQVEGLGFSHNKLKYIPNIFNAKSV 643
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 42/156 (26%), Positives = 59/156 (37%), Gaps = 35/156 (22%)
Query: 716 EELPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEA 775
EEL S L L+ ++L +C + LP L L L LNI C+
Sbjct: 483 EEL--SWSNLKDLTDVELYNCPNXTQLPDFLYDLPELQSLNI-ACNR------------- 526
Query: 776 LDSLHAVGTAIRELPPSIVRLK-------SVRAIYFGRNRGLSLPITFSVDGLQNLRDLN 828
G + +L RL ++ Y G N P + S LQ L
Sbjct: 527 -------GISAAQLKADWTRLADDEDTGPKIQIFYXGYNNLEEFPASAS---LQKXVKLG 576
Query: 829 LNDCGITELP--ESLGLLSLVTELHLEGNNFERIPE 862
L DC ++ E+ G +T+L L+ N E IPE
Sbjct: 577 LLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPE 612
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 10/87 (11%)
Query: 826 DLNLNDCGITELPESLGLLSLVTELHLEGNNFERIPESIIQLSNLEWLFIRYCE-RLQSL 884
+L LN ++ LP++L +T L + N +PE L ++ C+ RL +L
Sbjct: 63 ELQLNRLNLSSLPDNLP--PQITVLEITQNALISLPELPASLE-----YLDACDNRLSTL 115
Query: 885 PKLPCNLIWLDA--HHCTALESLPGLF 909
P+LP +L LD + T L LP L
Sbjct: 116 PELPASLKHLDVDNNQLTXLPELPALL 142
>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 = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 10/105 (9%)
Query: 703 GNIETMHLDGTALEE--LPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNI--D 758
++E + + G + +E LP L L+ LDL+ C+ + P+ L SL VLN+ +
Sbjct: 445 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN 504
Query: 759 GCSNLQRLPEE-LGYLEALD-SLHAVGTA----IRELPPSIVRLK 797
+L P + L L+ LD SL+ + T+ ++ P S+ L
Sbjct: 505 NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLN 549
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 10/105 (9%)
Query: 703 GNIETMHLDGTALEE--LPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNI--D 758
++E + + G + +E LP L L+ LDL+ C+ + P+ L SL VLN+ +
Sbjct: 469 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN 528
Query: 759 GCSNLQRLPEE-LGYLEALD-SLHAVGTA----IRELPPSIVRLK 797
+L P + L L+ LD SL+ + T+ ++ P S+ L
Sbjct: 529 NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLN 573
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 31.6 bits (70), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 10/76 (13%)
Query: 703 GNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVL------- 755
++ +HL L L +E L ++ LDL+ L++LP L L+ L+VL
Sbjct: 441 ADVRVLHLAHKDLTVL-CHLEQLLLVTHLDLSH-NRLRALPPALAALRCLEVLQASDNAL 498
Query: 756 -NIDGCSNLQRLPEEL 770
N+DG +NL RL E L
Sbjct: 499 ENVDGVANLPRLQELL 514
>pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 39/76 (51%), Gaps = 10/76 (13%)
Query: 703 GNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVL------- 755
++ +HL L L +E L ++ LDL+ L++LP L L+ L+VL
Sbjct: 441 ADVRVLHLAHKDLTVL-CHLEQLLLVTHLDLSH-NRLRALPPALAALRCLEVLQASDNAL 498
Query: 756 -NIDGCSNLQRLPEEL 770
N+DG +NL RL E L
Sbjct: 499 ENVDGVANLPRLQELL 514
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 53/198 (26%), Positives = 80/198 (40%), Gaps = 41/198 (20%)
Query: 683 LKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSL 742
L +LNL C K + +DGT L L LDL+ L+SL
Sbjct: 57 LTQLNLDRCELTK------------LQVDGT-----------LPVLGTLDLSH-NQLQSL 92
Query: 743 PSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAV---GTAIRELPPSIVR-LKS 798
P L +L VL++ + L LP LG L L L + G ++ LPP ++
Sbjct: 93 PLLGQTLPALTVLDV-SFNRLTSLP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPK 149
Query: 799 VRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFE 858
+ + N+ LP ++GL+NL L L + + +P+ L+ L GN +
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW- 207
Query: 859 RIPESIIQLSNLEWLFIR 876
L N E L+ R
Sbjct: 208 --------LCNCEILYFR 217
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 31.2 bits (69), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 53/198 (26%), Positives = 80/198 (40%), Gaps = 41/198 (20%)
Query: 683 LKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSL 742
L +LNL C K + +DGT L L LDL+ L+SL
Sbjct: 57 LTQLNLDRCELTK------------LQVDGT-----------LPVLGTLDLSH-NQLQSL 92
Query: 743 PSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAV---GTAIRELPPSIVR-LKS 798
P L +L VL++ + L LP LG L L L + G ++ LPP ++
Sbjct: 93 PLLGQTLPALTVLDV-SFNRLTSLP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPK 149
Query: 799 VRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFE 858
+ + N+ LP ++GL+NL L L + + +P+ L+ L GN +
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW- 207
Query: 859 RIPESIIQLSNLEWLFIR 876
L N E L+ R
Sbjct: 208 --------LCNCEILYFR 217
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 75/342 (21%), Positives = 136/342 (39%), Gaps = 71/342 (20%)
Query: 243 FAGSFFARNVREAEETGRLGDLRQQLLSTLLNDGNVKNFPNIDLNFQSKKLTRKKVLIVF 302
F+G ++ + +++G L L+ + + + P LN + K R +VL++
Sbjct: 185 FSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLP---LNIEEAK-DRLRVLML- 239
Query: 303 DDVNHPRQIKILVGRLD-----LLASGSRIIITTRDRQVLANCGVDEVYQMKELVHDDA- 356
HPR + IL D + +I++TT D+ V D V K +V ++
Sbjct: 240 --RKHPRSLLILDDVWDPWVLKAFDNQCQILLTTSDKSV-----TDSVMGPKHVVPVESG 292
Query: 357 ---------LRLFSRHAFEGDHPHESHTELACKIIKYARGVPLALEVLG--------RYL 399
L LF E D P E+H+ IIK +G PL + ++G R+
Sbjct: 293 LGREKGLEILSLFVNMKKE-DLPAEAHS-----IIKECKGSPLVVSLIGALLRDFPNRWA 346
Query: 400 YGKRREVWENA----ISKWETAPPKGIQDALKISYDGLDDKEQNVFLDIA---------- 445
Y R+ +N I K + + + +A+ IS + L + ++ + D++
Sbjct: 347 YYLRQ--LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPT 404
Query: 446 ---CFFIDDDRDTVTKFLDD--------CEFFATSGIEVLVDKHLITISVRNKIKMHDLL 494
C D + + V L + C S L D + ++ +N+ ++ DL
Sbjct: 405 KVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQLQDLH 464
Query: 495 RAMGREIVR--QESTNDPGKRSRL-WHHKEVYKILSENRGTE 533
R M + R Q T P + + W++ Y + S N E
Sbjct: 465 RKMVTQFQRYYQPHTLSPDQEDCMYWYNFLAYHMASANMHKE 506
>pdb|2QW5|A Chain A, Crystal Structure Of A Putative Sugar Phosphate
IsomeraseEPIMERASE (Ava4194) From Anabaena Variabilis
Atcc 29413 At 1.78 A Resolution
pdb|2QW5|B Chain B, Crystal Structure Of A Putative Sugar Phosphate
IsomeraseEPIMERASE (Ava4194) From Anabaena Variabilis
Atcc 29413 At 1.78 A Resolution
Length = 335
Score = 30.8 bits (68), Expect = 4.2, Method: Composition-based stats.
Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 4/89 (4%)
Query: 382 IKYARGVPLALEVLGRYLYGKRREVWENAISKWETAPPKGIQDALKISYDGLDDKEQNVF 441
++YA P+ L+ LG Y K+ ++ I+ WET P + ++ G+ K+ V
Sbjct: 157 VRYANAQPI-LDKLGEYAEIKKVKLAIEPITHWETPGPNKLSQLIEF-LKGVKSKQVGVV 214
Query: 442 LDIACFFIDDDRDTVTKFLDDCEFFATSG 470
+D A +D + + F E+ A G
Sbjct: 215 IDSAHEILDGEGPEI--FKTQVEYLAQQG 241
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 30.8 bits (68), Expect = 4.8, Method: Composition-based stats.
Identities = 32/108 (29%), Positives = 51/108 (47%), Gaps = 6/108 (5%)
Query: 768 EELGYLEALDSLHAVGTAIRELPPSIVRLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDL 827
E + YL L L I +L P LK++ I G L ++ GLQ+++ L
Sbjct: 57 EGVQYLNNLIGLELKDNQITDLAP----LKNLTKITELELSGNPLKNVSAIAGLQSIKTL 112
Query: 828 NLNDCGITELPESLGLLSLVTELHLEGNNFERIPESIIQLSNLEWLFI 875
+L IT++ GL +L L+L+ N I + L+NL++L I
Sbjct: 113 DLTSTQITDVTPLAGLSNLQV-LYLDLNQITNI-SPLAGLTNLQYLSI 158
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 688 LSGCS--KLKRLPEISSGNIETMHLDGTALEELPSS-IECLSKLSRLDLADCKSLKSLPS 744
++ CS KL ++P+ NI ++L L LP++ S+L+ LD+ ++ L
Sbjct: 13 VADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVG-FNTISKLEP 71
Query: 745 GLC-KLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAVGTAIRELPPS-IVRLKSVRAI 802
LC KL L VLN+ Q + + L LH + +I+++ + V+ K++ +
Sbjct: 72 ELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITL 131
Query: 803 YFGRNRGLS 811
N GLS
Sbjct: 132 DLSHN-GLS 139
>pdb|1XR7|A Chain A, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 16
pdb|1XR7|B Chain B, Crystal Structure Of Rna-Dependent Rna Polymerase 3d From
Human Rhinovirus Serotype 16
Length = 460
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 24 VFLSFRGEDTRENFT---SHLYSALSRESIE----TFIDDDLRRGDEISQSLLDAIEASS 76
V L + +D N T S L AL + ++ TF+ D+LR+ D+I+ IEASS
Sbjct: 121 VTLGIKKKDLINNKTKDISKLKLALDKYGVDLPMITFLKDELRKKDKIAAGKTRVIEASS 180
Query: 77 IS-IIVFSERYAS 88
I+ I+F Y +
Sbjct: 181 INDTILFRTVYGN 193
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 30.4 bits (67), Expect = 5.3, Method: Composition-based stats.
Identities = 32/108 (29%), Positives = 51/108 (47%), Gaps = 6/108 (5%)
Query: 768 EELGYLEALDSLHAVGTAIRELPPSIVRLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDL 827
E + YL L L I +L P LK++ I G L ++ GLQ+++ L
Sbjct: 63 EGIQYLNNLIGLELKDNQITDLTP----LKNLTKITELELSGNPLKNVSAIAGLQSIKTL 118
Query: 828 NLNDCGITELPESLGLLSLVTELHLEGNNFERIPESIIQLSNLEWLFI 875
+L IT++ GL +L L+L+ N I + L+NL++L I
Sbjct: 119 DLTSTQITDVTPLAGLSNLQV-LYLDLNQITNI-SPLAGLTNLQYLSI 164
>pdb|1FYX|A Chain A, Crystal Structure Of P681h Mutant Of Tir Domain Of Human
Tlr2
Length = 149
Score = 30.4 bits (67), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 18/87 (20%)
Query: 20 VQYDVFLSFRGEDTR----------ENFTSHLYSALSRESIETFIDDDLRRGDEISQSLL 69
+ YD F+S+ D ENF L + D G I +++
Sbjct: 4 IXYDAFVSYSERDAYWVENLMVQELENFNPPFKLXLHKR--------DFIHGKWIIDNII 55
Query: 70 DAIEASSISIIVFSERYASSRWCLDEL 96
D+IE S ++ V SE + S W EL
Sbjct: 56 DSIEKSHKTVFVLSENFVKSEWXKYEL 82
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 30.4 bits (67), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 688 LSGCS--KLKRLPEISSGNIETMHLDGTALEELPSS-IECLSKLSRLDLADCKSLKSLPS 744
++ CS KL ++P+ NI ++L L LP++ S+L+ LD+ ++ L
Sbjct: 8 VADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVG-FNTISKLEP 66
Query: 745 GLC-KLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAVGTAIRELPPS-IVRLKSVRAI 802
LC KL L VLN+ Q + + L LH + +I+++ + V+ K++ +
Sbjct: 67 ELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITL 126
Query: 803 YFGRNRGLS 811
N GLS
Sbjct: 127 DLSHN-GLS 134
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.4 bits (67), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 68/145 (46%), Gaps = 7/145 (4%)
Query: 735 DCKSLK--SLPSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAVGTAIRELPPS 792
DC+S + S+P+G+ + L+ + + L+ P L L L+ + LP
Sbjct: 25 DCRSKRHASVPAGIPTNAQILYLHDNQITKLE--PGVFDSLINLKELYLGSNQLGALPVG 82
Query: 793 IV-RLKSVRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELH 851
+ L + + G N+ LP + D L +L++L + +TELP + L+ +T L
Sbjct: 83 VFDSLTQLTVLDLGTNQLTVLP-SAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLA 141
Query: 852 LEGNNFERIPESII-QLSNLEWLFI 875
L+ N + IP +LS+L ++
Sbjct: 142 LDQNQLKSIPHGAFDRLSSLTHAYL 166
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 30.4 bits (67), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 43/92 (46%), Gaps = 10/92 (10%)
Query: 10 HPHGSLTNPEV-QYDVFLSFRGED---TRENFTSHL---YSALSRESIETFIDDDLRRGD 62
HP G T P++ +YD +L F +D + HL YS +R ++ F + D G+
Sbjct: 660 HPQG--TEPDMYKYDAYLCFSSKDFTWVQNALLKHLDTQYSDQNRFNL-CFEERDFVPGE 716
Query: 63 EISQSLLDAIEASSISIIVFSERYASSRWCLD 94
++ DAI S + + S + WCL+
Sbjct: 717 NRIANIQDAIWNSRKIVCLVSRHFLRDGWCLE 748
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 53/198 (26%), Positives = 80/198 (40%), Gaps = 41/198 (20%)
Query: 683 LKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSL 742
L +LNL C K + +DGT L L LDL+ L+SL
Sbjct: 57 LTQLNLDRCELTK------------LQVDGT-----------LPVLGTLDLSH-NQLQSL 92
Query: 743 PSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAV---GTAIRELPPSIVR-LKS 798
P L +L VL++ + L LP LG L L L + G ++ LPP ++
Sbjct: 93 PLLGQTLPALTVLDVS-FNRLTSLP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPK 149
Query: 799 VRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFE 858
+ + N+ LP ++GL+NL L L + + +P+ L+ L GN +
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW- 207
Query: 859 RIPESIIQLSNLEWLFIR 876
L N E L+ R
Sbjct: 208 --------LCNCEILYFR 217
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 35/129 (27%), Positives = 62/129 (48%), Gaps = 7/129 (5%)
Query: 688 LSGCS--KLKRLPEISSGNIETMHLDGTALEELPSS-IECLSKLSRLDLADCKSLKSLPS 744
++ CS KL ++P+ NI ++L L LP++ S+L+ LD+ ++ L
Sbjct: 18 VADCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVG-FNTISKLEP 76
Query: 745 GLC-KLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAVGTAIRELPPS-IVRLKSVRAI 802
LC KL L VLN+ Q + + L LH + +I+++ + V+ K++ +
Sbjct: 77 ELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITL 136
Query: 803 YFGRNRGLS 811
N GLS
Sbjct: 137 DLSHN-GLS 144
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 53/198 (26%), Positives = 80/198 (40%), Gaps = 41/198 (20%)
Query: 683 LKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSL 742
L +LNL C K + +DGT L L LDL+ L+SL
Sbjct: 57 LTQLNLDRCELTK------------LQVDGT-----------LPVLGTLDLSH-NQLQSL 92
Query: 743 PSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAV---GTAIRELPPSIVR-LKS 798
P L +L VL++ + L LP LG L L L + G ++ LPP ++
Sbjct: 93 PLLGQTLPALTVLDVS-FNRLTSLP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPK 149
Query: 799 VRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFE 858
+ + N+ LP ++GL+NL L L + + +P+ L+ L GN +
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW- 207
Query: 859 RIPESIIQLSNLEWLFIR 876
L N E L+ R
Sbjct: 208 --------LCNCEILYFR 217
>pdb|1TP7|A Chain A, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|B Chain B, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|C Chain C, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
pdb|1TP7|D Chain D, Crystal Structure Of The Rna-Dependent Rna Polymerase From
Human Rhinovirus 16
Length = 460
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 24 VFLSFRGEDTRENFT---SHLYSALSRESIE----TFIDDDLRRGDEISQSLLDAIEASS 76
V L + +D N T S L AL + ++ TF+ D+LR+ D+I+ IEASS
Sbjct: 121 VTLGIKKKDLINNKTKDISKLKLALDKYDVDLPXITFLKDELRKKDKIAAGKTRVIEASS 180
Query: 77 IS-IIVFSERYAS 88
I+ I+F Y +
Sbjct: 181 INDTILFRTVYGN 193
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 30.0 bits (66), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 39/102 (38%), Gaps = 21/102 (20%)
Query: 340 CGVDEVYQMKELVHDDALRLFSRHAFEGDHPHESHTELACKII-----KYARGVPLALEV 394
C +D+ EL+ L L R+ F P C + +Y+R PL
Sbjct: 504 CNMDDFKFSAELIQHIPLSLRVRYVF-CTAPINKKQPFVCSSLLQFARQYSRNEPLTFAW 562
Query: 395 LGRYLYGKRREVWENAISKWETAPPKGIQDALKIS--YDGLD 434
L RY+ KW PPK I+D + + +D LD
Sbjct: 563 LRRYI-------------KWPLLPPKNIKDLMDLEAVHDVLD 591
>pdb|1FYW|A Chain A, Crystal Structure Of The Tir Domain Of Human Tlr2
Length = 149
Score = 30.0 bits (66), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 14/85 (16%)
Query: 20 VQYDVFLSFRGEDTRENFTSHLYSALSRESIETFI--------DDDLRRGDEISQSLLDA 71
+ YD F+S+ D ++ L + +E F D G I +++D+
Sbjct: 4 IXYDAFVSYSERD------AYWVENLXVQELENFNPPFKLXLHKRDFIPGKWIIDNIIDS 57
Query: 72 IEASSISIIVFSERYASSRWCLDEL 96
IE S ++ V SE + S W EL
Sbjct: 58 IEKSHKTVFVLSENFVKSEWXKYEL 82
>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 = 8.7, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 52/105 (49%), Gaps = 10/105 (9%)
Query: 703 GNIETMHLDGTALEE--LPSSIECLSKLSRLDLADCKSLKSLPSGLCKLKSLDVLNI--D 758
++E + + G + +E LP L L+ LDL+ C+ + P+ L SL VLN+ +
Sbjct: 150 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN 209
Query: 759 GCSNLQRLPEE-LGYLEALD-SLHAVGTA----IRELPPSIVRLK 797
+L P + L L+ LD SL+ + T+ ++ P S+ L
Sbjct: 210 NFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLN 254
>pdb|1G8A|A Chain A, Pyrococcus Horikoshii Fibrillarin Pre-Rrna Processing
Protein
Length = 227
Score = 29.6 bits (65), Expect = 9.4, Method: Composition-based stats.
Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 4/77 (5%)
Query: 297 KVLIVFDDVNHPRQIKILVGRLDL-LASGSRIIITTRDRQVLANCGVDEVYQMKELVHDD 355
KV ++F+DV P Q KIL+ ++ L G +I + R + ++V++ E +
Sbjct: 143 KVDVIFEDVAQPTQAKILIDNAEVYLKRGGYGMIAVKSRSIDVTKEPEQVFREVERELSE 202
Query: 356 ALRLFSR---HAFEGDH 369
+ R +E DH
Sbjct: 203 YFEVIERLNLEPYEKDH 219
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 29.6 bits (65), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 53/198 (26%), Positives = 79/198 (39%), Gaps = 41/198 (20%)
Query: 683 LKELNLSGCSKLKRLPEISSGNIETMHLDGTALEELPSSIECLSKLSRLDLADCKSLKSL 742
L +LNL C K + +DGT L L LDL+ L+SL
Sbjct: 57 LTQLNLDRCELTK------------LQVDGT-----------LPVLGTLDLSH-NQLQSL 92
Query: 743 PSGLCKLKSLDVLNIDGCSNLQRLPEELGYLEALDSLHAV---GTAIRELPPSIVR-LKS 798
P L +L VL++ + L LP LG L L L + G ++ LPP ++
Sbjct: 93 PLLGQTLPALTVLDV-SFNRLTSLP--LGALRGLGELQELYLKGNELKTLPPGLLTPTPK 149
Query: 799 VRAIYFGRNRGLSLPITFSVDGLQNLRDLNLNDCGITELPESLGLLSLVTELHLEGNNFE 858
+ + N LP ++GL+NL L L + + +P+ L+ L GN +
Sbjct: 150 LEKLSLANNNLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW- 207
Query: 859 RIPESIIQLSNLEWLFIR 876
L N E L+ R
Sbjct: 208 --------LCNCEILYFR 217
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
0.321 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,093,276
Number of Sequences: 62578
Number of extensions: 1393464
Number of successful extensions: 3218
Number of sequences better than 100.0: 78
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 69
Number of HSP's that attempted gapping in prelim test: 3144
Number of HSP's gapped (non-prelim): 122
length of query: 1134
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1025
effective length of database: 8,152,335
effective search space: 8356143375
effective search space used: 8356143375
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: 57 (26.6 bits)