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= 038658
(831 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 = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/106 (32%), Positives = 49/106 (46%), Gaps = 7/106 (6%)
Query: 188 LFKLQRLRVFSLCGYW--ISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLYNLHTLSL 245
L LQ LR+ W I LP SI +L+ L+ L + + + L +++ L L L L
Sbjct: 182 LVNLQSLRL-----EWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDL 236
Query: 246 EGCRGLRKLCAGMGNLIKLHHLNNSNTDSLEEMPLGIGKLTCLQTL 291
GC LR G L L + +L +PL I +LT L+ L
Sbjct: 237 RGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 36.2 bits (82), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 33/68 (48%)
Query: 187 KLFKLQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLYNLHTLSLE 246
+ F+L L+ ++ + ELPD+ L L L+ +R LP S+ L L LS+
Sbjct: 99 QAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIR 158
Query: 247 GCRGLRKL 254
C L +L
Sbjct: 159 ACPELTEL 166
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 32/64 (50%), Gaps = 5/64 (7%)
Query: 468 GVEGFPKLRELEVIGCSKLKGTFP--EHLPALEMLVIGGCEELL---VSITSLPALSKLE 522
+ PKL EL++ GC+ L+ P L+ L++ C LL + I L L KL+
Sbjct: 224 AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLD 283
Query: 523 IGGC 526
+ GC
Sbjct: 284 LRGC 287
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 204 ISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLYNLHTLSLEGCRGLRKLCAGMGNLIK 263
+ + PD L +L++ + + LP++ + L TL+L LR L A + +L +
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL-ARNPLRALPASIASLNR 151
Query: 264 LHHLNNSNTDSLEEMP 279
L L+ L E+P
Sbjct: 152 LRELSIRACPELTELP 167
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 36.6 bits (83), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 47/87 (54%), Gaps = 3/87 (3%)
Query: 161 IQHLRTFLPVCLSNSSQGFLAHSILPKLFKLQRLRVFSLCGYWISELPDSIGDLRYLRYL 220
++HL + LS + + S+L +L +LQ +++ G P + L YLR L
Sbjct: 244 VRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVG--GQLAVVEPYAFRGLNYLRVL 301
Query: 221 NLSGTQIRTLPESV-NKLYNLHTLSLE 246
N+SG Q+ TL ESV + + NL TL L+
Sbjct: 302 NVSGNQLTTLEESVFHSVGNLETLILD 328
>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 = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 35/104 (33%), Positives = 58/104 (55%), Gaps = 6/104 (5%)
Query: 191 LQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESV-NKLYNLHTLSLEGCR 249
L +R +L G + ++ ++ +L L YL L+G Q+++LP V +KL NL L L +
Sbjct: 62 LPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ 120
Query: 250 GLRKLCAGM-GNLIKLHHLNNSNTDSLEEMPLGI-GKLTCLQTL 291
L+ L G+ L L +LN ++ + L+ +P G+ KLT L L
Sbjct: 121 -LQSLPDGVFDKLTNLTYLNLAH-NQLQSLPKGVFDKLTNLTEL 162
>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 = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 25/57 (43%)
Query: 191 LQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLYNLHTLSLEG 247
L LRV L ++ LP +G L+Y + TLP L NL L +EG
Sbjct: 269 LSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEG 325
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 30/58 (51%)
Query: 183 SILPKLFKLQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLYNL 240
+I +FK L L G ++ELP I +L LR L+LS ++ +LP + + L
Sbjct: 238 NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQL 295
>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 = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 191 LQRLRVFSLCGYWISE--LPDSIGDLRYLRYLNLSGTQIRTL-PESVNKLYNLHTLSL 245
L L V + G E LPD +LR L +L+LS Q+ L P + N L +L L++
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 206
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 62/124 (50%), Gaps = 32/124 (25%)
Query: 183 SILPKLFKLQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLY---- 238
S LPKL +++ + +L +I+ P++ +L L+YL +S T I+ LP+ V+K++
Sbjct: 76 SNLPKLHEIRIEKANNL--LYIN--PEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQK 130
Query: 239 ---------NLHT--------LSLEGC------RGLRKLCAGMGNLIKLHHLNNSNTDSL 275
N+HT LS E G++++ N +L LN S+ ++L
Sbjct: 131 VLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNL 190
Query: 276 EEMP 279
EE+P
Sbjct: 191 EELP 194
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 35/107 (32%), Positives = 56/107 (52%), Gaps = 12/107 (11%)
Query: 191 LQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESV-NKLYNLHTLSLEGCR 249
L +R +L G + ++ ++ +L L YL L+G Q+++LP V +KL NL L L +
Sbjct: 62 LPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ 120
Query: 250 GLRKLCAG----MGNLIKLHHLNNSNTDSLEEMPLGI-GKLTCLQTL 291
L+ L G + NL L+ +N L+ +P G+ KLT L L
Sbjct: 121 -LQSLPDGVFDKLTNLTYLYLYHN----QLQSLPKGVFDKLTNLTRL 162
>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 = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 191 LQRLRVFSLCGYWISE--LPDSIGDLRYLRYLNLSGTQIRTL-PESVNKLYNLHTLSL 245
L L V + G E LPD +LR L +L+LS Q+ L P + N L +L L++
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 525
>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 = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 191 LQRLRVFSLCGYWISE--LPDSIGDLRYLRYLNLSGTQIRTL-PESVNKLYNLHTLSL 245
L L V + G E LPD +LR L +L+LS Q+ L P + N L +L L++
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 501
>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 = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 184 ILPKLFK-LQRLRVFSLCGYWISEL-PDSIGDLRYLRYLNLSGTQIRTLPESV 234
I P F ++LR L ISEL PD+ LR L L L G +I LP+S+
Sbjct: 47 IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL 99
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 30.4 bits (67), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 28/53 (52%), Gaps = 2/53 (3%)
Query: 184 ILPKLFK-LQRLRVFSLCGYWISEL-PDSIGDLRYLRYLNLSGTQIRTLPESV 234
I P F ++LR L ISEL PD+ LR L L L G +I LP+S+
Sbjct: 47 IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL 99
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 191 LQRLRVFSLCGYWISE--LPDSIGDLRYLRYLNLSGTQIRTL-PESVNKLYNLHTLSL 245
L L V + G E LPD +LR L +L+LS Q+ L P + N L +L L++
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 501
>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 = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 35/105 (33%), Positives = 52/105 (49%), Gaps = 8/105 (7%)
Query: 190 KLQRLRVFSLCGYWISELPDSI-GDLRYLRYLNLSGTQIRTLPESV-NKLYNLHTLSLEG 247
+L L L G + LP+ + L L YLNLS Q+++LP V +KL L L+L
Sbjct: 50 ELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALN- 108
Query: 248 CRGLRKLCAGMGNLIKLHHLNNSN--TDSLEEMPLGI-GKLTCLQ 289
L+ L G+ KL L + + L+ +P G+ +LT LQ
Sbjct: 109 TNQLQSLPDGV--FDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQ 151
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 62/124 (50%), Gaps = 32/124 (25%)
Query: 183 SILPKLFKLQRLRVFSLCGYWISELPDSIGDLRYLRYLNLSGTQIRTLPESVNKLY---- 238
S LPKL +++ + +L +I+ P++ +L L+YL +S T I+ LP+ V+K++
Sbjct: 76 SNLPKLHEIRIEKANNLL--YIN--PEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQK 130
Query: 239 ---------NLHT--------LSLEGC------RGLRKLCAGMGNLIKLHHLNNSNTDSL 275
N+HT LS E G++++ N +L LN S+ ++L
Sbjct: 131 VLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDELNLSDNNNL 190
Query: 276 EEMP 279
EE+P
Sbjct: 191 EELP 194
>pdb|1S4U|X Chain X, Crystal Structure Analysis Of The Beta-Propeller Protein
Ski8p
Length = 407
Score = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 4/35 (11%)
Query: 572 SNIKNETYIWKRHNGFLQDISSLKRLTIGWCPTLQ 606
+++K TYIWK H F + +S LT+ W PTL+
Sbjct: 154 TDVKGTTYIWKFHP-FADESNS---LTLNWSPTLE 184
>pdb|1SQ9|A Chain A, Structure Of Ski8p, A Wd Repeat Protein Involved In Mrna
Degradation And Meiotic Recombination
Length = 397
Score = 29.3 bits (64), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 4/35 (11%)
Query: 572 SNIKNETYIWKRHNGFLQDISSLKRLTIGWCPTLQ 606
+++K TYIWK H F + +S LT+ W PTL+
Sbjct: 144 TDVKGTTYIWKFHP-FADESNS---LTLNWSPTLE 174
>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 = 29.3 bits (64), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 39/84 (46%), Gaps = 11/84 (13%)
Query: 214 LRYLRYLNLSGTQIRTLPESV-----------NKLYNLHTLSLEGCRGLRKLCAGMGNLI 262
++ L Y+ ++ T I T+P+ + NK+ + SL+G L KL ++
Sbjct: 170 MKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS 229
Query: 263 KLHHLNNSNTDSLEEMPLGIGKLT 286
+ + + +NT L E+ L KL
Sbjct: 230 AVDNGSLANTPHLRELHLNNNKLV 253
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 39/84 (46%), Gaps = 11/84 (13%)
Query: 214 LRYLRYLNLSGTQIRTLPESV-----------NKLYNLHTLSLEGCRGLRKLCAGMGNLI 262
++ L Y+ ++ T I T+P+ + NK+ + SL+G L KL ++
Sbjct: 170 MKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS 229
Query: 263 KLHHLNNSNTDSLEEMPLGIGKLT 286
+ + + +NT L E+ L KL
Sbjct: 230 AVDNGSLANTPHLRELHLNNNKLV 253
>pdb|2JQD|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of Lanp
Length = 169
Score = 29.3 bits (64), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 21/50 (42%), Positives = 29/50 (58%), Gaps = 3/50 (6%)
Query: 217 LRYLNLSGTQIRTLP--ESVNKLYNLHTLSLEGCRGLRKLCAGMGNLIKL 264
L++LNLSG +I+ L E + KL NL +L L C + L A N+ KL
Sbjct: 95 LKHLNLSGNKIKDLSTIEPLKKLENLKSLDLFNCE-VTNLNAYRENVFKL 143
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 0.137 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,750,863
Number of Sequences: 62578
Number of extensions: 958628
Number of successful extensions: 1936
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1911
Number of HSP's gapped (non-prelim): 43
length of query: 831
length of database: 14,973,337
effective HSP length: 107
effective length of query: 724
effective length of database: 8,277,491
effective search space: 5992903484
effective search space used: 5992903484
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: 56 (26.2 bits)