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= 044382
(543 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 = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 48/104 (46%), Gaps = 3/104 (2%)
Query: 100 LFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESVNKLYNLHTLLLEG 159
L LQ LR L I LP SI +L+ L+ L + + + L +++ L L L L G
Sbjct: 182 LVNLQSLR---LEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRG 238
Query: 160 CRRLKKLCADMGNLIKLHHLNDSNTDSLEEMPLGIGKLTCLQTL 203
C L+ G L L + +L +PL I +LT L+ L
Sbjct: 239 CTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282
Score = 35.8 bits (81), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 54/135 (40%), Gaps = 16/135 (11%)
Query: 99 KLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESVNKLYNLHTLLLE 158
+ F+L L+ ++ + ELPD+ L L L+ +R LP S+ L L L +
Sbjct: 99 QAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIR 158
Query: 159 GCRRLKKLCADMGN---------LIKLHHLNDSNTDSLEEMPLGIGKLTCLQTLCNFVVG 209
C L +L + + L+ L L T + +P I L L++L
Sbjct: 159 ACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSL------ 211
Query: 210 KDSGSGLRELKSLIH 224
K S L L IH
Sbjct: 212 KIRNSPLSALGPAIH 226
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 32/132 (24%), Positives = 54/132 (40%), Gaps = 4/132 (3%)
Query: 108 VFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESVNKLYNLHTLLLEGCRRLKKLC 167
LR + + PD L +L++ + + LP++ + L TL L L+ L
Sbjct: 85 ALELRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL-ARNPLRALP 143
Query: 168 ADMGNLIKLHHLNDSNTDSLEEMPLGIGKLTCL---QTLCNFVVGKDSGSGLRELKSLIH 224
A + +L +L L+ L E+P + Q L N + +G+R L + I
Sbjct: 144 ASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIA 203
Query: 225 LQGTLKISKLEN 236
LK K+ N
Sbjct: 204 NLQNLKSLKIRN 215
>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 = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 38/66 (57%), Gaps = 3/66 (4%)
Query: 95 SILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESV-NKLYNLH 153
S+L +L +LQ +++ G P + L YLR LN+SG + TL ESV + + NL
Sbjct: 266 SMLHELLRLQEIQLVG--GQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLE 323
Query: 154 TLLLEG 159
TL+L+
Sbjct: 324 TLILDS 329
>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 = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%)
Query: 83 LSNGFLSGYLACSILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTL 142
L+ +L+G + ++ L LRV L + LP +G L+Y ++ TL
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTL 308
Query: 143 PESVNKLYNLHTLLLEG 159
P L NL L +EG
Sbjct: 309 PWEFGNLCNLQFLGVEG 325
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 1/92 (1%)
Query: 88 LSGYLACSILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESVN 147
LS +I +FK L L G + ELP I +L LR L+LS + +LP +
Sbjct: 231 LSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELG 290
Query: 148 KLYNLHTLLLEGCRRLKKLCADMGNLIKLHHL 179
+ L + L + GNL L L
Sbjct: 291 SCFQLKYFYFFD-NMVTTLPWEFGNLCNLQFL 321
>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 = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 94 CSILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSG--TVIRTLPESVNKLYN 151
C + +++ L + L Y +P S+ +L YL +L + G ++ +P ++ KL
Sbjct: 43 CDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQ 102
Query: 152 LHTLLL 157
LH L +
Sbjct: 103 LHYLYI 108
>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 = 1.7, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 41/64 (64%), Gaps = 5/64 (7%)
Query: 95 SILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESVNKLYNLHT 154
S LPKL +++ + +L +Y P++ +L L+YL +S T I+ LP+ V+K+++L
Sbjct: 76 SNLPKLHEIRIEKANNL----LYINPEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQK 130
Query: 155 LLLE 158
+LL+
Sbjct: 131 VLLD 134
>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 = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 54/103 (52%), Gaps = 4/103 (3%)
Query: 103 LQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESV-NKLYNLHTLLLEGCR 161
L +R +L G ++++ ++ +L L YL L+G +++LP V +KL NL L+L +
Sbjct: 62 LPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ 120
Query: 162 RLKKLCADMGNLIKLHHLNDSNTDSLEEMPLGI-GKLTCLQTL 203
L L +LN ++ + L+ +P G+ KLT L L
Sbjct: 121 LQSLPDGVFDKLTNLTYLNLAH-NQLQSLPKGVFDKLTNLTEL 162
>pdb|3TGQ|A Chain A, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
pdb|3TGQ|B Chain B, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
pdb|3TGQ|C Chain C, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
pdb|3TGQ|D Chain D, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
Length = 352
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 38/79 (48%), Gaps = 3/79 (3%)
Query: 451 VWRSATDHLGSQNSVVCRDTS-NQVFLSGPLKPRIPKLEELKINNIQNETCIWKSH--NE 507
VW+ AT L + DT + V+ + P P +E+K+ N+ +WK++ +
Sbjct: 1 VWKEATTTLFCASDAKAYDTEVHNVWATHACVPTDPNPQEVKLENVTENFNMWKNNMVEQ 60
Query: 508 LLQDICSLKRLLITSCPKL 526
+ +DI SL + C KL
Sbjct: 61 MHEDIISLWDQSLKPCVKL 79
>pdb|2Z84|A Chain A, Insights From Crystal And Solution Structures Of Mouse
Ufsp1
Length = 218
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 10/88 (11%)
Query: 143 PESVNKLYNLHTLLLEGCRRLKKLCADMGNLIKLHHLNDSNTDSLEEMPLGIGKLTCLQT 202
P ++ L ++H L C +L G+ + H+ D L++ G G T LQT
Sbjct: 1 PSTLELLKDVHLGLPVPCHDPARLALLSGHYLYYHY----GCDGLDDRGWGCGYRT-LQT 55
Query: 203 LCNFVVGKDSGSGLRELKSLIHLQGTLK 230
LC++ G+ SG + L LQG L+
Sbjct: 56 LCSWPGGQSSG-----VPGLPALQGALE 78
>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 = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 41/64 (64%), Gaps = 5/64 (7%)
Query: 95 SILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESVNKLYNLHT 154
S LPKL +++ + +L +Y P++ +L L+YL +S T I+ LP+ V+K+++L
Sbjct: 76 SNLPKLHEIRIEKANNL----LYINPEAFQNLPNLQYLLISNTGIKHLPD-VHKIHSLQK 130
Query: 155 LLLE 158
+LL+
Sbjct: 131 VLLD 134
>pdb|3MES|A Chain A, Crystal Structure Of Choline Kinase From Cryptosporidium
Parvum Iowa Ii, Cgd3_2030
pdb|3MES|B Chain B, Crystal Structure Of Choline Kinase From Cryptosporidium
Parvum Iowa Ii, Cgd3_2030
Length = 424
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 39/210 (18%), Positives = 82/210 (39%), Gaps = 24/210 (11%)
Query: 108 VFSLRGYHIYELPDSIGDL---RYLRYLNLSGTVIRTLPESVNKLYNLHTLLLEGCRRLK 164
+F + G H+ + DS +L RYL +N++ +I PE + + L +L
Sbjct: 106 LFRIYGKHVGKFYDSKVELDVFRYLSNINIAPNIIADFPEGRIEEFIDGEPLTTKQLQLT 165
Query: 165 KLCADMG-NLIKLHHLNDSNTD---SLEEMPLGIGKLTCLQTLCNFVVGKDSGSGLRELK 220
+C ++ N+ LH +N D ++ P+ ++ + V K++ +EL
Sbjct: 166 HICVEVAKNMGSLHIINSKRADFPSRFDKEPILFKRIYLWREEAKIQVSKNNFQIDKELY 225
Query: 221 SLIHLQGTLKISKLENIKDIGDAKEARLDGKKNLKELSLNWTCSTDGLSSTEAETEKDVL 280
S I +++I +E + G+K E +L + S A +
Sbjct: 226 SKI-------------LEEIDQLEELIMGGEKFSMERALELKLYSPAFSLVFAHNDLQEN 272
Query: 281 DMLKPHKNLE----QFGICGYGGTKFPTWL 306
++L+ N+ ++ + G +
Sbjct: 273 NLLQTQNNIRMIDYEYSAINFAGADIANYF 302
>pdb|1Y1U|A Chain A, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|B Chain B, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|C Chain C, Structure Of Unphosphorylated Stat5a
Length = 585
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 77 TFLPVRLSNGFLSGY-LACSILPKLFKLQRLRVFSLRGYHIYELPDSIGDLRYLRYL 132
TFL +R S+ + G +A L L+ F+ R + I L D +GDL YL Y+
Sbjct: 487 TFL-LRFSDSEIGGITIAWKFDSPDRNLWNLKPFTTRDFSIRSLADRLGDLNYLIYV 542
>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 = 8.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 34/56 (60%), Gaps = 2/56 (3%)
Query: 103 LQRLRVFSLRGYHIYELPDSIGDLRYLRYLNLSGTVIRTLPESV-NKLYNLHTLLL 157
L +R +L G ++++ ++ +L L YL L+G +++LP V +KL NL L+L
Sbjct: 62 LPNVRYLALGGNKLHDI-SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVL 116
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
0.320 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,812,470
Number of Sequences: 62578
Number of extensions: 727510
Number of successful extensions: 1455
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1433
Number of HSP's gapped (non-prelim): 49
length of query: 543
length of database: 14,973,337
effective HSP length: 104
effective length of query: 439
effective length of database: 8,465,225
effective search space: 3716233775
effective search space used: 3716233775
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: 54 (25.4 bits)