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= 011891
(475 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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 61/152 (40%), Gaps = 33/152 (21%)
Query: 53 CSKLKSLPEISSA-GNIEKILLDGTAIEELPSSIGCLSRLLELNLGDCKNL--------- 102
+ L LP+ +E + L + LP+SI L+RL EL++ C L
Sbjct: 113 AAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLAS 172
Query: 103 -----------------------KTLPSSLCKLKSLEEICLTGSAIEELPSPIECLSALC 139
++LP+S+ L++L+ + + S + L I L L
Sbjct: 173 TDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLE 232
Query: 140 VLDLGDCKSLKSLKLPFDGLYSLTYLYLTDCA 171
LDL C +L++ F G L L L DC+
Sbjct: 233 ELDLRGCTALRNYPPIFGGRAPLKRLILKDCS 264
Score = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 39/106 (36%), Positives = 54/106 (50%), Gaps = 7/106 (6%)
Query: 39 IQHLNKLVILNLSGCSKLKSL-PEISSAGNIEKILLDG-TAIEELPSSIGCLSRLLELNL 96
+Q+L L I N S L +L P I +E++ L G TA+ P G + L L L
Sbjct: 205 LQNLKSLKIRN----SPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLIL 260
Query: 97 GDCKNLKTLPSSLCKLKSLEEICLTGSA-IEELPSPIECLSALCVL 141
DC NL TLP + +L LE++ L G + LPS I L A C++
Sbjct: 261 KDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCII 306
Score = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 25/59 (42%)
Query: 98 DCKNLKTLPSSLCKLKSLEEICLTGSAIEELPSPIECLSALCVLDLGDCKSLKSLKLPF 156
D L LP + + LE + L + + LP+ I L+ L L + C L L P
Sbjct: 112 DAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPL 170
>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 = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 3/78 (3%)
Query: 98 DCKNLK--TLPSSLCKLKSLEEICLTGSAIEELPSPIECLSALCVLDLGDCKSLKSLKLP 155
D NL+ + +++ K L + L G+++ ELP+ I+ LS L VLDL + L SL
Sbjct: 230 DLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAE 288
Query: 156 FDGLYSLTYLYLTDCAIT 173
+ L Y Y D +T
Sbjct: 289 LGSCFQLKYFYFFDNMVT 306
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 34/111 (30%), Positives = 58/111 (52%), Gaps = 7/111 (6%)
Query: 67 NIEKILLDGTAIEELPSSIGCLSRLLELNLGDCKN--LKTLPSSLCK-LKSLEEICLTGS 123
++E + L +I ++ +G + L LN + + L +PS + L L E+ L +
Sbjct: 100 HLEVLQLGRNSIRQI--EVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNN 157
Query: 124 AIEELPS-PIECLSALCVLDLGDCKSLKSL-KLPFDGLYSLTYLYLTDCAI 172
IE +PS + +L LDLG+ K L+ + + F+GL++L YL L C I
Sbjct: 158 PIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNI 208
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 63/122 (51%), Gaps = 5/122 (4%)
Query: 3 HSNIEQLSESVQHHGKLNQIIMAACNIFTKTPNPSLIQHLNKLVILNLSGCSKLKS-LPE 61
HSN++Q+SE N I + + T+ + L+ L +L ++G S ++ LP+
Sbjct: 405 HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD 464
Query: 62 I-SSAGNIEKILLDGTAIEEL-PSSIGCLSRLLELNLGDCKNLKTLPSSLC-KLKSLEEI 118
I + N+ + L +E+L P++ LS L LN+ LK++P + +L SL++I
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS-NQLKSVPDGIFDRLTSLQKI 523
Query: 119 CL 120
L
Sbjct: 524 WL 525
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 5/92 (5%)
Query: 78 IEELPSSIGCLSRLLELNLGDCKNLKTLPSSLCKLKSLEEICLTGSAIEELPSPI-ECLS 136
+ +P+ I + L LN L+ P L +L+++ + + +P+ + + L+
Sbjct: 24 LASVPAGIPTDKQRLWLNNNQITKLE--PGVFDHLVNLQQLYFNSNKLTAIPTGVFDKLT 81
Query: 137 ALCVLDLGDCKSLKSL-KLPFDGLYSLTYLYL 167
L LDL D LKS+ + FD L SLT++YL
Sbjct: 82 QLTQLDLND-NHLKSIPRGAFDNLKSLTHIYL 112
>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 = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 45/161 (27%), Positives = 69/161 (42%), Gaps = 32/161 (19%)
Query: 35 NPSLIQHLNKLVILNLSGCSKLKSLPEISSAGNIEKILLD-------------------- 74
NP Q+L L L +S + +K LP++ +++K+LLD
Sbjct: 96 NPEAFQNLPNLQYLLISN-TGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSF 154
Query: 75 --------GTAIEELPSSIGCLSRLLELNLGDCKNLKTLPSSLCKLKSLEEIC-LTGSAI 125
I+E+ +S ++L ELNL D NL+ LP+ + S I ++ + I
Sbjct: 155 ESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRI 214
Query: 126 EELPS-PIECLSALCVLDLGDCKSLKSL-KLPFDGLYSLTY 164
LPS +E L L + K L +L KL SLTY
Sbjct: 215 HSLPSYGLENLKKLRARSTYNLKKLPTLEKLVALMEASLTY 255
>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 = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 60/141 (42%), Gaps = 22/141 (15%)
Query: 3 HSNIEQLSESVQHHGKLNQIIMAACNIFTKTPNPSLIQHLNKLVILNLSGCSKLKSLPEI 62
HSN++Q+SE N I + + T+ + L+ L +L ++G S ++
Sbjct: 429 HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF--- 485
Query: 63 SSAGNIEKILLDGTAIEELPSSIGCLSRLLELNLGDCKNLKTLPSSLCKLKSLEEICLTG 122
LP L L L+L C+ + P++ L SL+ + ++
Sbjct: 486 ------------------LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 527
Query: 123 SAIEELPS-PIECLSALCVLD 142
+ L + P +CL++L VLD
Sbjct: 528 NNFFSLDTFPYKCLNSLQVLD 548
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 60/141 (42%), Gaps = 22/141 (15%)
Query: 3 HSNIEQLSESVQHHGKLNQIIMAACNIFTKTPNPSLIQHLNKLVILNLSGCSKLKSLPEI 62
HSN++Q+SE N I + + T+ + L+ L +L ++G S ++
Sbjct: 405 HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF--- 461
Query: 63 SSAGNIEKILLDGTAIEELPSSIGCLSRLLELNLGDCKNLKTLPSSLCKLKSLEEICLTG 122
LP L L L+L C+ + P++ L SL+ + ++
Sbjct: 462 ------------------LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Query: 123 SAIEELPS-PIECLSALCVLD 142
+ L + P +CL++L VLD
Sbjct: 504 NNFFSLDTFPYKCLNSLQVLD 524
>pdb|1SG3|A Chain A, Structure Of Allantoicase
pdb|1SG3|B Chain B, Structure Of Allantoicase
Length = 349
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 9/91 (9%)
Query: 284 ARWKEIREKISYPALQGHVVLPGNEIPMWFSSQGMGSSITLKMQP-GCFSNNKVFGFVFC 342
+RW EI EK Q H+ + GN + ++ + I LKM P G + +++G V
Sbjct: 132 SRWVEIVEKFECGPSQRHLFVRGNGL-----TKERFTHIKLKMYPDGGIARFRLYGRVVP 186
Query: 343 AIVAFRDHHVRDWSFKFYCEFKIKLKDCDPH 373
+ +DH + + C + LK D H
Sbjct: 187 PELKTKDHII---DLAYVCNGAVALKYSDQH 214
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 9/103 (8%)
Query: 75 GTAIEELPSSIGCLSRLLELNLGDCKNLKTLPSSLCKLKSLEEICLTGSAIEELPSPI-E 133
G ++ +P+ I +++L L D + K P +L L + L + + LP+ + +
Sbjct: 18 GKSLASVPTGIPTTTQVLYLY--DNRITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFD 75
Query: 134 CLSALCVLDLGDCKSLKSL-KLPFDGLYSLTYLYLT----DCA 171
L+ L L L D LKS+ + FD L SLT+++L DCA
Sbjct: 76 KLTQLTQLSLND-NQLKSIPRGAFDNLRSLTHIWLLNNPWDCA 117
>pdb|3I05|A Chain A, Tryptophanyl-Trna Synthetase From Trypanosoma Brucei
pdb|3I05|B Chain B, Tryptophanyl-Trna Synthetase From Trypanosoma Brucei
Length = 395
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 352 VRDWSFKFYCEFKIKLKDCDPHVI-QRYLGRVNYV---EPDHLLLGYYFFNHQDLN 403
V WS + + +KD H I + L R+ V +P H L FF+H+DLN
Sbjct: 12 VTPWSVEGDVNYDKLIKDFGSHAIDEALLERIERVLGKKPHHFLRRGIFFSHRDLN 67
>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 = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 50/182 (27%), Positives = 81/182 (44%), Gaps = 38/182 (20%)
Query: 23 IMAACNIFTKTPNPSLIQHLNKLVILNLS--------------GCS--KLKSLPEISSAG 66
++A+CN T+ P L Q L L++ N + G S +L+ LPE+ ++
Sbjct: 96 LVASCNSLTELP--ELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSS 153
Query: 67 NIEKILLDGTAIEELPSSIGCLSRLLELN--LGDCKNLKTLP---------SSLCKLK-- 113
++ I +D ++++LP L + N L + L+ LP +SL KL
Sbjct: 154 FLKIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDL 213
Query: 114 --SLEEICLTGSAIEELPSPIECLSALCVLDLGDCKSLKSLKLPFDGLYSLTYLYLTDCA 171
SLE I + +EELP ++ L L + D LK+L D SL L + D
Sbjct: 214 PLSLESIVAGNNILEELPE-LQNLPFLTTI-YADNNLLKTLP---DLPPSLEALNVRDNY 268
Query: 172 IT 173
+T
Sbjct: 269 LT 270
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 40/63 (63%), Gaps = 3/63 (4%)
Query: 107 SSLCKLKSLEEICLTGSAIEELPSPI-ECLSALCVLDLGDCKSLKSL-KLPFDGLYSLTY 164
S+L +L +L + LTG+ ++ LP+ + + L+ L L L + + L+SL FD L +LTY
Sbjct: 79 SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTY 137
Query: 165 LYL 167
LYL
Sbjct: 138 LYL 140
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 52/103 (50%), Gaps = 9/103 (8%)
Query: 75 GTAIEELPSSIGCLSRLLELNLGDCKNLKTLPSSLCKLKSLEEICLTGSAIEELPSPI-E 133
G ++ +P+ I +++L L D + K P +L L + L + + LP+ + +
Sbjct: 26 GKSLASVPTGIPTTTQVLYLY--DNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFD 83
Query: 134 CLSALCVLDLGDCKSLKSL-KLPFDGLYSLTYLYLT----DCA 171
L+ L L L D LKS+ + FD L SLT+++L DCA
Sbjct: 84 KLTQLTQLSLND-NQLKSIPRGAFDNLKSLTHIWLLNNPWDCA 125
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
0.323 0.139 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,563,492
Number of Sequences: 62578
Number of extensions: 530800
Number of successful extensions: 1051
Number of sequences better than 100.0: 28
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1025
Number of HSP's gapped (non-prelim): 46
length of query: 475
length of database: 14,973,337
effective HSP length: 102
effective length of query: 373
effective length of database: 8,590,381
effective search space: 3204212113
effective search space used: 3204212113
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: 53 (25.0 bits)