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= 042065
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 66/137 (48%), Gaps = 24/137 (17%)
Query: 65 CWHPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKL------ 118
C +P +N + L L + G G+ P + NCS + L LS N L G++P + L
Sbjct: 389 CQNP-KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDL 447
Query: 119 -----------------VGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP 161
V L L L N+ +G IP+ L+NC+ LN + L +NR +G+IP
Sbjct: 448 KLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP 507
Query: 162 PQLGQLGRLKSFSVANN 178
+G+L L ++NN
Sbjct: 508 KWIGRLENLAILKLSNN 524
Score = 61.2 bits (147), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 58/95 (61%), Gaps = 2/95 (2%)
Query: 83 LKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLAN 142
L G+ P G+ NC+++ + LS+N+L G +P I +L L L LS+N+FSG+IP L +
Sbjct: 478 LTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN-LAILKLSNNSFSGNIPAELGD 536
Query: 143 CSYLNSLKLDHNRFSGQIPPQL-GQLGRLKSFSVA 176
C L L L+ N F+G IP + Q G++ + +A
Sbjct: 537 CRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIA 571
Score = 59.7 bits (143), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 44/110 (40%), Positives = 57/110 (51%), Gaps = 4/110 (3%)
Query: 72 KVLNLRLTDMGLKGQFPRGIRNCS-SMTGLDLSSNKLYGS-LPDDISKLVGFLTGLDLSS 129
KVL+L + G+ P + N S S+ LDLSSN G LP+ L L L +
Sbjct: 346 KVLDLSFNE--FSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQN 403
Query: 130 NNFSGSIPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVANNL 179
N F+G IP L+NCS L SL L N SG IP LG L +L+ + N+
Sbjct: 404 NGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNM 453
Score = 53.1 bits (126), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 51/94 (54%), Gaps = 5/94 (5%)
Query: 83 LKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLAN 142
L G P+ I + + L+L N + GS+PD++ L G L LDLSSN G IP ++
Sbjct: 644 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRG-LNILDLSSNKLDGRIPQAMSA 702
Query: 143 CSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVA 176
+ L + L +N SG IP ++G+ ++F A
Sbjct: 703 LTMLTEIDLSNNNLSGPIP----EMGQFETFPPA 732
Score = 50.4 bits (119), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 93 NCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLD 152
N SM LD+S N L G +P +I + +L L+L N+ SGSIP + + LN L L
Sbjct: 630 NNGSMMFLDMSYNMLSGYIPKEIGSMP-YLFILNLGHNDISGSIPDEVGDLRGLNILDLS 688
Query: 153 HNRFSGQIPPQLGQLGRLKSFSVANN 178
N+ G+IP + L L ++NN
Sbjct: 689 SNKLDGRIPQAMSALTMLTEIDLSNN 714
Score = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 54/118 (45%), Gaps = 28/118 (23%)
Query: 76 LRLTDMGLKGQFPRGIRN-CSSMTGLDLSSNKLYGSLP---------------------- 112
L L + G+ P + C ++TGLDLS N YG++P
Sbjct: 274 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGE 333
Query: 113 ---DDISKLVGFLTGLDLSSNNFSGSIPTNLANCSY-LNSLKLDHNRFSGQIPPQLGQ 166
D + K+ G L LDLS N FSG +P +L N S L +L L N FSG I P L Q
Sbjct: 334 LPMDTLLKMRG-LKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 390
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 39/115 (33%), Positives = 56/115 (48%), Gaps = 22/115 (19%)
Query: 69 DENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSN----------------------K 106
D + + +L ++ L G F R I C+ + L++SSN K
Sbjct: 221 DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENK 280
Query: 107 LYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP 161
G +PD +S LTGLDLS N+F G++P +CS L SL L N FSG++P
Sbjct: 281 FTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELP 335
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 73 VLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNF 132
+LNL D + G P + + + LDLSSNKL G +P +S L LT +DLS+NN
Sbjct: 660 ILNLGHND--ISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT-MLTEIDLSNNNL 716
Query: 133 SGSIP 137
SG IP
Sbjct: 717 SGPIP 721
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 91 IRNCSSMTGLDLSSNKLYGSLP--DDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNS 148
+ C ++ LD+SSN +P D S L LD+S N SG ++ C+ L
Sbjct: 196 VSRCVNLEFLDVSSNNFSTGIPFLGDCSAL----QHLDISGNKLSGDFSRAISTCTELKL 251
Query: 149 LKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
L + N+F G IPP L L+ S+A N
Sbjct: 252 LNISSNQFVGPIPPL--PLKSLQYLSLAEN 279
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 76 LRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPD 113
L L+ L G+ P+ + + +T +DLS+N L G +P+
Sbjct: 685 LDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 722
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 66/137 (48%), Gaps = 24/137 (17%)
Query: 65 CWHPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKL------ 118
C +P +N + L L + G G+ P + NCS + L LS N L G++P + L
Sbjct: 386 CQNP-KNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDL 444
Query: 119 -----------------VGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP 161
V L L L N+ +G IP+ L+NC+ LN + L +NR +G+IP
Sbjct: 445 KLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP 504
Query: 162 PQLGQLGRLKSFSVANN 178
+G+L L ++NN
Sbjct: 505 KWIGRLENLAILKLSNN 521
Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 37/95 (38%), Positives = 58/95 (61%), Gaps = 2/95 (2%)
Query: 83 LKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLAN 142
L G+ P G+ NC+++ + LS+N+L G +P I +L L L LS+N+FSG+IP L +
Sbjct: 475 LTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN-LAILKLSNNSFSGNIPAELGD 533
Query: 143 CSYLNSLKLDHNRFSGQIPPQL-GQLGRLKSFSVA 176
C L L L+ N F+G IP + Q G++ + +A
Sbjct: 534 CRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIA 568
Score = 59.7 bits (143), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 44/110 (40%), Positives = 57/110 (51%), Gaps = 4/110 (3%)
Query: 72 KVLNLRLTDMGLKGQFPRGIRNCS-SMTGLDLSSNKLYGS-LPDDISKLVGFLTGLDLSS 129
KVL+L + G+ P + N S S+ LDLSSN G LP+ L L L +
Sbjct: 343 KVLDLSFNE--FSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQN 400
Query: 130 NNFSGSIPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVANNL 179
N F+G IP L+NCS L SL L N SG IP LG L +L+ + N+
Sbjct: 401 NGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNM 450
Score = 53.1 bits (126), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 51/94 (54%), Gaps = 5/94 (5%)
Query: 83 LKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLAN 142
L G P+ I + + L+L N + GS+PD++ L G L LDLSSN G IP ++
Sbjct: 641 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRG-LNILDLSSNKLDGRIPQAMSA 699
Query: 143 CSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVA 176
+ L + L +N SG IP ++G+ ++F A
Sbjct: 700 LTMLTEIDLSNNNLSGPIP----EMGQFETFPPA 729
Score = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/86 (37%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 93 NCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLD 152
N SM LD+S N L G +P +I + +L L+L N+ SGSIP + + LN L L
Sbjct: 627 NNGSMMFLDMSYNMLSGYIPKEIGSMP-YLFILNLGHNDISGSIPDEVGDLRGLNILDLS 685
Query: 153 HNRFSGQIPPQLGQLGRLKSFSVANN 178
N+ G+IP + L L ++NN
Sbjct: 686 SNKLDGRIPQAMSALTMLTEIDLSNN 711
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/118 (35%), Positives = 54/118 (45%), Gaps = 28/118 (23%)
Query: 76 LRLTDMGLKGQFPRGIRN-CSSMTGLDLSSNKLYGSLP---------------------- 112
L L + G+ P + C ++TGLDLS N YG++P
Sbjct: 271 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGE 330
Query: 113 ---DDISKLVGFLTGLDLSSNNFSGSIPTNLANCSY-LNSLKLDHNRFSGQIPPQLGQ 166
D + K+ G L LDLS N FSG +P +L N S L +L L N FSG I P L Q
Sbjct: 331 LPMDTLLKMRG-LKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 387
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 39/115 (33%), Positives = 56/115 (48%), Gaps = 22/115 (19%)
Query: 69 DENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSN----------------------K 106
D + + +L ++ L G F R I C+ + L++SSN K
Sbjct: 218 DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENK 277
Query: 107 LYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP 161
G +PD +S LTGLDLS N+F G++P +CS L SL L N FSG++P
Sbjct: 278 FTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELP 332
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/65 (44%), Positives = 38/65 (58%), Gaps = 3/65 (4%)
Query: 73 VLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNF 132
+LNL D + G P + + + LDLSSNKL G +P +S L LT +DLS+NN
Sbjct: 657 ILNLGHND--ISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT-MLTEIDLSNNNL 713
Query: 133 SGSIP 137
SG IP
Sbjct: 714 SGPIP 718
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 91 IRNCSSMTGLDLSSNKLYGSLP--DDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNS 148
+ C ++ LD+SSN +P D S L LD+S N SG ++ C+ L
Sbjct: 193 VSRCVNLEFLDVSSNNFSTGIPFLGDCSAL----QHLDISGNKLSGDFSRAISTCTELKL 248
Query: 149 LKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
L + N+F G IPP L L+ S+A N
Sbjct: 249 LNISSNQFVGPIPPL--PLKSLQYLSLAEN 276
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 76 LRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPD 113
L L+ L G+ P+ + + +T +DLS+N L G +P+
Sbjct: 682 LDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 719
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 51/97 (52%), Gaps = 2/97 (2%)
Query: 83 LKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLAN 142
L G P I + + L ++ + G++PD +S++ +T LD S N SG++P ++++
Sbjct: 89 LVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT-LDFSYNALSGTLPPSISS 147
Query: 143 CSYLNSLKLDHNRFSGQIPPQLGQLGRL-KSFSVANN 178
L + D NR SG IP G +L S +++ N
Sbjct: 148 LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN 184
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 33/92 (35%), Positives = 48/92 (52%), Gaps = 8/92 (8%)
Query: 93 NCSSMTGLDLSSNKLY---GSLPDDISKLVGF---LTGLDLSSNNFSGSIPTNLANCSYL 146
+ S + G D ++ K++ SL D+ K VG L GLDL +N G++P L +L
Sbjct: 212 DASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFL 270
Query: 147 NSLKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
+SL + N G+I PQ G L R + ANN
Sbjct: 271 HSLNVSFNNLCGEI-PQGGNLQRFDVSAYANN 301
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 1/97 (1%)
Query: 82 GLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLA 141
L G P I + ++ G+ N++ G++PD T + +S N +G IP A
Sbjct: 136 ALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFA 195
Query: 142 NCSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
N + L + L N G G + +A N
Sbjct: 196 NLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKN 231
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 125 LDLSSNNFSGS--IPTNLANCSYLNSLKLDH-NRFSGQIPPQLGQLGRLKSFSVAN 177
LDLS N IP++LAN YLN L + N G IPP + +L +L + +
Sbjct: 55 LDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITH 110
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 48/109 (44%), Gaps = 2/109 (1%)
Query: 72 KVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNN 131
++ L L GL+ P R +++ L L N L +LPDD + +G LT L L N
Sbjct: 105 RLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNR 163
Query: 132 FSGSIPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKS-FSVANNL 179
S L+ L L NR + P LGRL + + ANNL
Sbjct: 164 ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNL 212
>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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 48/109 (44%), Gaps = 2/109 (1%)
Query: 72 KVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNN 131
++ L L GL+ P R +++ L L N L +LPDD + +G LT L L N
Sbjct: 106 RLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQ-ALPDDTFRDLGNLTHLFLHGNR 164
Query: 132 FSGSIPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKS-FSVANNL 179
S L+ L L NR + P LGRL + + ANNL
Sbjct: 165 ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNL 213
>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 = 35.0 bits (79), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 46/81 (56%), Gaps = 4/81 (4%)
Query: 99 GLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSG 158
LDLS+ +++ ++ +I K FLT L L+ N+ + +P + N S L L L HNR +
Sbjct: 228 ALDLSNLQIF-NISANIFK-YDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLTS 284
Query: 159 QIPPQLGQLGRLKSFSVANNL 179
+P +LG +LK F +N+
Sbjct: 285 -LPAELGSCFQLKYFYFFDNM 304
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 33.5 bits (75), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 50/109 (45%), Gaps = 5/109 (4%)
Query: 72 KVLNLRLTDMGLKGQFPRGI--RNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSS 129
++ L L GLK F + +N SS+ LD+S N L D + L+LSS
Sbjct: 378 RLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS 437
Query: 130 NNFSGSIPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
N +GS+ L + L L +NR IP + L L+ +VA+N
Sbjct: 438 NMLTGSVFRCLP--PKVKVLDLHNNRIMS-IPKDVTHLQALQELNVASN 483
>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 = 33.1 bits (74), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 25/65 (38%), Positives = 35/65 (53%), Gaps = 3/65 (4%)
Query: 92 RNCSSMTGLDLSSNKLYGSLPDDI-SKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLK 150
+N +T +DL NKL SL DD + + +L+ D+S N FS S PT N S L +
Sbjct: 725 KNTYLLTTIDLRFNKL-TSLSDDFRATTLPYLSNXDVSYNCFS-SFPTQPLNSSQLKAFG 782
Query: 151 LDHNR 155
+ H R
Sbjct: 783 IRHQR 787
>pdb|3GCM|A Chain A, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GCM|B Chain B, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GCM|C Chain C, Crystal Structure Of E. Coli Polynucleotide Phosphorylase
Bound To Rna And Rnase E
pdb|3GLL|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core
pdb|3GME|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase In
Complex With Rnase E And Manganese
Length = 549
Score = 32.3 bits (72), Expect = 0.14, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 68 PDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDL 127
P E + L RL D ++ FP G N + +S N + DI ++G L L
Sbjct: 84 PSEGETLIARLIDRPIRPLFPEGFVNEVQVIATVVSVNP---QVNPDIVAMIGASAALSL 140
Query: 128 SSNNFSGSIPTNLANCSYLN 147
S F+G P A Y+N
Sbjct: 141 SGIPFNG--PIGAARVGYIN 158
>pdb|3H1C|A Chain A, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|B Chain B, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|C Chain C, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|G Chain G, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|I Chain I, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|K Chain K, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|M Chain M, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|O Chain O, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|R Chain R, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|T Chain T, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|V Chain V, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
pdb|3H1C|X Chain X, Crystal Structure Of Polynucleotide Phosphorylase (Pnpase)
Core Bound To Rnase E And Tungstate
Length = 549
Score = 32.3 bits (72), Expect = 0.14, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 68 PDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDL 127
P E + L RL D ++ FP G N + +S N + DI ++G L L
Sbjct: 84 PSEGETLIARLIDRPIRPLFPEGFVNEVQVIATVVSVNP---QVNPDIVAMIGASAALSL 140
Query: 128 SSNNFSGSIPTNLANCSYLN 147
S F+G P A Y+N
Sbjct: 141 SGIPFNG--PIGAARVGYIN 158
>pdb|3CDJ|A Chain A, Crystal Structure Of The E. Coli KhS1 DOMAIN TRUNCATED
Pnpase
Length = 559
Score = 32.3 bits (72), Expect = 0.14, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 68 PDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDL 127
P E + L RL D ++ FP G N + +S N + DI ++G L L
Sbjct: 90 PSEGETLIARLIDRPIRPLFPEGFVNEVQVIATVVSVNP---QVNPDIVAMIGASAALSL 146
Query: 128 SSNNFSGSIPTNLANCSYLN 147
S F+G P A Y+N
Sbjct: 147 SGIPFNG--PIGAARVGYIN 164
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 32.3 bits (72), Expect = 0.14, Method: Composition-based stats.
Identities = 24/80 (30%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 68 PDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDL 127
P E + L RL D ++ FP G N + +S N + DI ++G L L
Sbjct: 90 PSEGETLIARLIDRPIRPLFPEGFVNEVQVIATVVSVNP---QVNPDIVAMIGASAALSL 146
Query: 128 SSNNFSGSIPTNLANCSYLN 147
S F+G P A Y+N
Sbjct: 147 SGIPFNG--PIGAARVGYIN 164
>pdb|4ECO|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
pdb|4ECO|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
Length = 636
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 92 RNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKL 151
+N +T +DL NKL D + + +L G+DLS N+FS PT N S L +
Sbjct: 485 KNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFS-KFPTQPLNSSTLKGFGI 543
Query: 152 DHNR 155
+ R
Sbjct: 544 RNQR 547
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 91 IRNCSSMTGLDLSSNKLYGSLPDDISKLVGF--LTGLDLSSNNFSGSIPTNLANCSYLNS 148
++N +++ L+LSSN + DIS L G L L SSN + P LAN + L
Sbjct: 125 LKNLTNLNRLELSSNTI-----SDISALSGLTSLQQLSFSSNQVTDLKP--LANLTTLER 177
Query: 149 LKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
L + N+ S L +L L+S NN
Sbjct: 178 LDISSNKVSD--ISVLAKLTNLESLIATNN 205
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 37 QTDLDQVTTLQADRLGIKS--IDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 91
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 92 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 135
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 11/90 (12%)
Query: 91 IRNCSSMTGLDLSSNKLYGSLPDDISKLVGF--LTGLDLSSNNFSGSIPTNLANCSYLNS 148
++N +++ L+LSSN + DIS L G L L SSN + P LAN + L
Sbjct: 125 LKNLTNLNRLELSSNTI-----SDISALSGLTSLQQLSFSSNQVTDLKP--LANLTTLER 177
Query: 149 LKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
L + N+ S L +L L+S NN
Sbjct: 178 LDISSNKVSD--ISVLAKLTNLESLIATNN 205
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 37 QTDLDQVTTLQADRLGIKS--IDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 91
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 92 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 135
>pdb|2PV7|A Chain A, Crystal Structure Of Chorismate Mutase PREPHENATE
DEHYDROGENASE (Tyra) (1574749) From Haemophilus
Influenzae Rd At 2.00 A Resolution
pdb|2PV7|B Chain B, Crystal Structure Of Chorismate Mutase PREPHENATE
DEHYDROGENASE (Tyra) (1574749) From Haemophilus
Influenzae Rd At 2.00 A Resolution
Length = 298
Score = 29.6 bits (65), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 24 EDIACLKSIKDSLEDPFNYLNSSWNFNNDTEGFICKFTGVECWHPD 69
E++A ++++K + ++ + NND +GFI F V W D
Sbjct: 236 ENLAVIETLKQTYDEALTFFE-----NNDRQGFIDAFHKVRDWFGD 276
>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 = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 50/103 (48%), Gaps = 5/103 (4%)
Query: 76 LRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGS 135
+R ++ GLK P+GI +T L L N+ + +P ++S LT +DLS+N S
Sbjct: 15 VRCSNKGLK-VLPKGIPR--DVTELYLDGNQ-FTLVPKELSN-YKHLTLIDLSNNRISTL 69
Query: 136 IPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKSFSVANN 178
+ +N + L +L L +NR P L L+ S+ N
Sbjct: 70 SNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGN 112
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 2/63 (3%)
Query: 68 PDENKVLNLRLTDMGLKGQFPRGIRNCSSM--TGLDLSSNKLYGSLPDDISKLVGFLTGL 125
P E+ +L RL D L+ F +G+RN + T + L+ + LY + + + L GL
Sbjct: 108 PSEDAILTCRLIDRPLRPSFKKGLRNEIQVVATIMALNPDHLYDVVAINAASASTQLAGL 167
Query: 126 DLS 128
S
Sbjct: 168 PFS 170
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 51/125 (40%), Gaps = 28/125 (22%)
Query: 77 RLTDMGLKGQFPRGIRNCSSMTGL------DLSSNKLYGSLP-----------------D 113
++T++ L G ++N S++ GL DL+S ++ P
Sbjct: 86 KITELELSG---NPLKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQIT 142
Query: 114 DISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIPPQLGQLGRLKSF 173
+IS L G LS N S T LAN S L +LK D N+ S P L L L
Sbjct: 143 NISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISDISP--LASLPNLIEV 200
Query: 174 SVANN 178
+ NN
Sbjct: 201 HLKNN 205
>pdb|2BKG|A Chain A, Crystal Structure Of E3_19 An Designed Ankyrin Repeat
Protein
pdb|2BKG|B Chain B, Crystal Structure Of E3_19 An Designed Ankyrin Repeat
Protein
Length = 166
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 8/51 (15%)
Query: 99 GLDLSSNKLYGSLPDDISKLVGFLT--------GLDLSSNNFSGSIPTNLA 141
G D+++ YG P ++ VG L G D+++ +FSGS P +LA
Sbjct: 37 GADVNAEDTYGDTPLHLAARVGHLEIVEVLLKNGADVNALDFSGSTPLHLA 87
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 28.9 bits (63), Expect = 1.7, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 68 PDENKVLNLRLTDMGLKGQFPRGIRN 93
P E+ +L RL D L+ F +G+RN
Sbjct: 108 PSEDAILTCRLIDRPLRPSFKKGLRN 133
>pdb|2KF2|A Chain A, Solution Nmr Structure Of Of Streptomyces Coelicolor
Polyketide Cyclase Sco5315. Northeast Structural
Genomics Consortium Target Rr365
Length = 167
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 39 PFNYLNSSWNFNNDTEGFICKFTGVECWHPD 69
PF Y+N W + EG + ++T PD
Sbjct: 87 PFQYMNIVWEYAETAEGTVMRWTQDFAMKPD 117
>pdb|2IGS|A Chain A, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|B Chain B, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|C Chain C, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|D Chain D, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|E Chain E, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|F Chain F, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|G Chain G, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
pdb|2IGS|H Chain H, Crystal Structure Of The Protein Of Unknown Function From
Pseudomonas Aeruginosa
Length = 219
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 22/42 (52%)
Query: 110 SLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKL 151
+LP+DI LVG GL L + NFS T + Y ++ L
Sbjct: 168 TLPEDIKALVGPGVGLRLDAPNFSDVFNTIKSGLRYTTAVTL 209
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 40/93 (43%), Gaps = 4/93 (4%)
Query: 89 RGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTN--LANCSYL 146
RN ++ LDL S+K+Y PD L L L L S ++ + N L
Sbjct: 67 EAFRNLPNLRILDLGSSKIYFLHPDAFQGLFH-LFELRLYFCGLSDAVLKDGYFRNLKAL 125
Query: 147 NSLKLDHNRF-SGQIPPQLGQLGRLKSFSVANN 178
L L N+ S + P G+L LKS ++N
Sbjct: 126 TRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSN 158
>pdb|3TL1|A Chain A, Crystal Structure Of The Streptomyces Coelicolor Whie
Orfvi Polyketide AromataseCYCLASE
pdb|3TL1|B Chain B, Crystal Structure Of The Streptomyces Coelicolor Whie
Orfvi Polyketide AromataseCYCLASE
Length = 159
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 39 PFNYLNSSWNFNNDTEGFICKFTGVECWHPD 69
PF Y+N W + EG + ++T PD
Sbjct: 87 PFQYMNIVWEYAETAEGTVMRWTQDFAMKPD 117
>pdb|3TVR|A Chain A, Crystal Structure Of Streptomyces Coelicolor Polyketide
AromataseCYCLASE WHIE-Orfvi
Length = 173
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 39 PFNYLNSSWNFNNDTEGFICKFT 61
PF Y+N W + EG + ++T
Sbjct: 101 PFQYMNIVWEYAETAEGTVMRWT 123
>pdb|1T5J|A Chain A, Crystal Structure Of Ribosylglycohydrolase Mj1187 From
Methanococcus Jannaschii
Length = 313
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 22 TKEDIACLKSIKDSLEDPFNYLNSSWN---FNNDTEGFIC 58
TKE+I L DS +P NYL N + +DTE IC
Sbjct: 31 TKEEIKKLYGFVDSYVEPKNYLAGKLNKGEWTDDTEQAIC 70
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 58/133 (43%), Gaps = 17/133 (12%)
Query: 58 CKFTGVECWH----------PDENKVLNLRLTDMGLKGQFPRGIRN-CSSMTGLDLSSNK 106
C T VEC+ P + L+L + P G+ + +S+T L L NK
Sbjct: 7 CSGTTVECYSQGRTSVPTGIPAQTTYLDLETNSLK---SLPNGVFDELTSLTQLYLGGNK 63
Query: 107 LYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLAN-CSYLNSLKLDHNRFSGQIPPQLG 165
L SLP+ + + LT L+LS+N S+P + + + L L L+ N+
Sbjct: 64 LQ-SLPNGVFNKLTSLTYLNLSTNQLQ-SLPNGVFDKLTQLKELALNTNQLQSLPDGVFD 121
Query: 166 QLGRLKSFSVANN 178
+L +LK + N
Sbjct: 122 KLTQLKDLRLYQN 134
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 1/70 (1%)
Query: 88 PRGIRNCSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLN 147
P +N +T L L N L SLP I LT L +S+NN + L
Sbjct: 116 PHVFQNVPLLTVLVLERNDL-SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQ 174
Query: 148 SLKLDHNRFS 157
+L+L NR +
Sbjct: 175 NLQLSSNRLT 184
>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 = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 90 GIRN-CSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNS 148
GI N SS+ L ++ N + DI + LT LDLS PT + S L
Sbjct: 463 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 522
Query: 149 LKLDHNRF 156
L + HN F
Sbjct: 523 LNMSHNNF 530
>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 = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 90 GIRN-CSSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNS 148
GI N SS+ L ++ N + DI + LT LDLS PT + S L
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
Query: 149 LKLDHNRF 156
L + HN F
Sbjct: 499 LNMSHNNF 506
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 37 QTDLDQVTTLQADRLGIKS--IDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 91
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 92 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 135
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 37 QTDLDQVTTLQADRLGIKS--IDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 91
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 92 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 135
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 37 QTDLDQVTTLQADRLGIKS--IDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 91
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 92 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 135
>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 = 26.6 bits (57), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 27/62 (43%)
Query: 95 SSMTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHN 154
SS+ L ++ N + DI + LT LDLS PT + S L L + HN
Sbjct: 150 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN 209
Query: 155 RF 156
F
Sbjct: 210 NF 211
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 42 QTDLDQVTTLQADRLGIKSI--DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 96
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 97 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 140
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 26.6 bits (57), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 54/107 (50%), Gaps = 10/107 (9%)
Query: 67 HPDENKVLNLRLTDMGLKGQFPRGIRNCSSMTGLDLSSNKLYGSLP-DDISKLVGFLTGL 125
D ++V L+ +G+K G+ +++T ++ S+N+L P +++KLV L
Sbjct: 41 QTDLDQVTTLQADRLGIKSI--DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDIL--- 95
Query: 126 DLSSNNFSGSIPTNLANCSYLNSLKLDHNRFSGQIP-PQLGQLGRLK 171
+++N + P LAN + L L L +N+ + P L L RL+
Sbjct: 96 -MNNNQIADITP--LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLE 139
>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 = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 97 MTGLDLSSNKLYGSLPDDISKLVGFLTGLDLSSNNFSGSIPTNLANCSYLNSLKLDHN 154
M +DLS N+L S + +S L G L+L+SN+ S +P+ L S ++ L N
Sbjct: 502 MNHVDLSHNRLTSSSIEALSHLKGIY--LNLASNHISIILPSLLPILSQQRTINLRQN 557
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.318 0.137 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,553,492
Number of Sequences: 62578
Number of extensions: 233816
Number of successful extensions: 725
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 621
Number of HSP's gapped (non-prelim): 99
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)