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= 003270
(835 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 36.2 bits (82), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 53/221 (23%), Positives = 87/221 (39%), Gaps = 47/221 (21%)
Query: 283 LPMLTVLQLHSCEGITSASMAAISHSYMLEVLELDNCNLLTSVSLELPRLQNIRL----- 337
L L V+Q + G IS + +LEV+E D V LP+L IR+
Sbjct: 39 LTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN 91
Query: 338 ---VHCRKFADL-NLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQENLT------- 386
++ F +L NL+ +++S+ + + +H+I +SLQK+ L Q+N+
Sbjct: 92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNINIHTIERN 147
Query: 387 ----------SLALQCQCLQEVDLTDCESLTNSVCEV-FSDGGGCPMLKSLVLDNCEGLT 435
L L +QE+ +C + E+ SD L + V G
Sbjct: 148 SFVGLSFESVILWLNKNGIQEIH--NCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPV 205
Query: 436 VVRFCSTSLVSLSLVGCRAITALEL-------KCPILEKVC 469
++ T + SL G + L K P LEK+
Sbjct: 206 ILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPTLEKLV 246
>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 = 36.2 bits (82), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 55/113 (48%), Gaps = 20/113 (17%)
Query: 283 LPMLTVLQLHSCEGITSASMAAISHSYMLEVLELDNCNLLTSVSLELPRLQNIRL----- 337
L L V+Q + G IS + +LEV+E D V LP+L IR+
Sbjct: 39 LTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD-------VFSNLPKLHEIRIEKANN 91
Query: 338 ---VHCRKFADL-NLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQENLT 386
++ F +L NL+ +++S+ + + +H+I +SLQK+ L Q+N+
Sbjct: 92 LLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKI----HSLQKVLLDIQDNIN 140
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 34.7 bits (78), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 53/210 (25%), Positives = 94/210 (44%), Gaps = 34/210 (16%)
Query: 541 DDCLSATTTSCPLIESLILMSCQSIGPDGLYSL----RSLQNLTML-----DLSYTFLTN 591
DDCL S + L+L SC+ DGL ++ R+L+ L + D+S +L++
Sbjct: 119 DDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSH 178
Query: 592 LEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLSY-------GTLCQSA 644
+ S + L + L + ++ ++LE L + P L+ L L+ TL Q A
Sbjct: 179 FPDTYTSLVSLNISCLAS--EVSFSALERLVTR--CPNLKSLKLNRAVPLEKLATLLQRA 234
Query: 645 --IEEL--LAYCTHLT-------HVSLNGCGNMHDLNWGASGCQPFESPSVYNSCGIFPH 693
+EEL Y + V+L+GC + L+ G P P+VY+ C
Sbjct: 235 PQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLS-GFWDAVPAYLPAVYSVCSRLTT 293
Query: 694 ENIHESIDQPNRLLQNLNCVGCPNIRKVFI 723
N+ + Q L++ L CP ++++++
Sbjct: 294 LNLSYATVQSYDLVKLL--CQCPKLQRLWV 321
Score = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 97/442 (21%), Positives = 167/442 (37%), Gaps = 77/442 (17%)
Query: 122 LRNLEALTLG--RGQLGDAFFHALADCSMLKSLNVNDATL----GNGVQEIPINHDQLRR 175
+N + L L G D A C LK L++ ++ + G+ + P + L
Sbjct: 129 FKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVS 188
Query: 176 L-------EITKCRVMRVSIRCPQLEHLSLKRS----NMAQAVLNCPLLHLLD----IAS 220
L E++ + R+ RCP L+ L L R+ +A + P L L A
Sbjct: 189 LNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAE 248
Query: 221 CHKLSDAAIRLAATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLES 280
+ + +A + C +L L S L + C+ L LN SY S +
Sbjct: 249 VRPDVYSGLSVALSGCKELRCL--SGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDL 306
Query: 281 VRL----PMLTVLQLHSCEGITSASMAAI--------------SHSYMLEVLELDNCNLL 322
V+L P L +L + I A + + S +++E L
Sbjct: 307 VKLLCQCPKLQ--RLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGL 364
Query: 323 TSVSLELPRLQNIRLVHCRKFADLNLRAMMLSSIMVSNCAALHRINITSNSLQKLSLQKQ 382
SVS+ P+L+++ L CR+ + L + A +R N+T L + +
Sbjct: 365 VSVSMGCPKLESV-LYFCRQMTNAALITI-----------ARNRPNMTRFRLCIIEPKAP 412
Query: 383 ENLTSLALQC-------QCLQEVDLTDCESLTNSVCEVFSDGGGCPMLKSLVLDNCEGLT 435
+ LT L C L+ LT+ V E E L+
Sbjct: 413 DYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYI----------GTYAKKMEMLS 462
Query: 436 VVRFCSTSLVSLS--LVGCRAITALELK-CPILEKVCLDGCDHIESASFVPVALQSLNLG 492
V F S + + L GC ++ LE++ CP +K L +E+ + ++ S++ G
Sbjct: 463 VA-FAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSVSFG 521
Query: 493 ICPKLSTLGIEALHMVVLELKG 514
C KL + L++ V++ +G
Sbjct: 522 AC-KLLGQKMPKLNVEVIDERG 542
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 66/138 (47%), Gaps = 25/138 (18%)
Query: 186 VSIRCPQ-------LEHLS---LKRSNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATS 235
++ RCP+ EH S ++ +++ +V+ LH + ++ C KL + ++ S
Sbjct: 73 IAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGI-LSQCSKLQNLSLEGLRLS 131
Query: 236 CP---------QLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPML 286
P L L++S CS S+ +L+ + SC+ L LN S+C + + + V++ +
Sbjct: 132 DPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAV- 190
Query: 287 TVLQLHSCEGITSASMAA 304
H E IT +++
Sbjct: 191 ----AHVSETITQLNLSG 204
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 6/84 (7%)
Query: 579 LTMLDLSYTFLTNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLSYG 638
+T LDLS+ L L P + L+VL+ ++ +LE++ +LP LQEL L
Sbjct: 465 VTHLDLSHNRLRALPPALAALRCLEVLQA------SDNALENVDGVANLPRLQELLLCNN 518
Query: 639 TLCQSAIEELLAYCTHLTHVSLNG 662
L QSA + L C L ++L G
Sbjct: 519 RLQQSAAIQPLVSCPRLVLLNLQG 542
>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 = 33.9 bits (76), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 6/84 (7%)
Query: 579 LTMLDLSYTFLTNLEPVFESCLQLKVLKLQACKYLTNTSLESLYKKGSLPALQELDLSYG 638
+T LDLS+ L L P + L+VL+ ++ +LE++ +LP LQEL L
Sbjct: 465 VTHLDLSHNRLRALPPALAALRCLEVLQA------SDNALENVDGVANLPRLQELLLCNN 518
Query: 639 TLCQSAIEELLAYCTHLTHVSLNG 662
L QSA + L C L ++L G
Sbjct: 519 RLQQSAAIQPLVSCPRLVLLNLQG 542
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 32.7 bits (73), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 49/97 (50%), Gaps = 4/97 (4%)
Query: 155 NDATLGNGVQEIPINHDQLRRLEITKCRVMRVSIRCPQLEHLSLKRSNMAQAVLNC---- 210
+D +L + E + H L I + + +C +L++LSL+ ++ ++N
Sbjct: 44 SDESLWQTLDEFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKN 103
Query: 211 PLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNC 247
L L+++ C S+ A++ +SC +L+ L++S C
Sbjct: 104 SNLVRLNLSGCSGFSEFALQTLLSSCSRLDELNLSWC 140
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 28/121 (23%), Positives = 59/121 (48%), Gaps = 15/121 (12%)
Query: 193 LEHLSLKRSNMAQAVLNCPLLHLLDIASCHKLSDAAIRLAATSCP---------QLESLD 243
L+ ++ +++ +V+ LH + ++ C KL + ++ S P L L+
Sbjct: 52 LDEFRVQHMDLSNSVIEVSTLHGI-LSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLN 110
Query: 244 MSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQLHSCEGITSASMA 303
+S CS S+ +L+ + SC+ L LN S+C + + + V++ + H E IT +++
Sbjct: 111 LSGCSGFSEFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAV-----AHVSETITQLNLS 165
Query: 304 A 304
Sbjct: 166 G 166
>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 = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 21/42 (50%), Positives = 26/42 (61%), Gaps = 3/42 (7%)
Query: 567 PDGLYSLRSLQNLTMLDLSYTFLTNL-EPVFESCLQLKVLKL 607
P G++ L NLT LDLSY L +L E VF+ QLK L+L
Sbjct: 149 PKGVFD--KLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
>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 = 30.4 bits (67), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 567 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 625
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 168 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 220
Query: 626 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 660
L +LQ LD S + S +EL + + L ++L
Sbjct: 221 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 255
>pdb|3BZ5|A Chain A, Functional Domain Of Inlj From Listeria Monocytogenes
Includes A Cysteine Ladder
Length = 457
Score = 30.4 bits (67), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 49/112 (43%), Gaps = 4/112 (3%)
Query: 353 LSSIMVSNCAALHRINITSNSLQKLSLQKQENLTSLALQCQCLQEVDLTDCESLTNSVCE 412
++ + VS L+R+N +N++ KL L + LT L L E+D+T LT C
Sbjct: 182 ITELDVSQNKLLNRLNCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCS 241
Query: 413 VFS----DGGGCPMLKSLVLDNCEGLTVVRFCSTSLVSLSLVGCRAITALEL 460
V D L +L + L + +T L+ GCR I L++
Sbjct: 242 VNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDV 293
>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 = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 65/140 (46%), Gaps = 15/140 (10%)
Query: 142 ALADCSMLKSLNVNDATLG-NGVQEIPINHDQLRRLEITKCRVMRVSI-------RCPQL 193
+L CS LK LNV+ TL G + + L L+++ + ++ C +L
Sbjct: 121 SLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 180
Query: 194 EHLSLKRSNMAQ--AVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCVS 251
+HL++ + ++ V C L LD++S + S L C L+ LD+S
Sbjct: 181 KHLAISGNKISGDVDVSRCVNLEFLDVSS-NNFSTGIPFLG--DCSALQHLDISGNKLSG 237
Query: 252 DESLREIALSCANLRILNSS 271
D S R I+ +C L++LN S
Sbjct: 238 DFS-RAIS-TCTELKLLNIS 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 = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 567 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 625
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 487 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 539
Query: 626 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 660
L +LQ LD S + S +EL + + L ++L
Sbjct: 540 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 574
>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 = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 39/140 (27%), Positives = 65/140 (46%), Gaps = 15/140 (10%)
Query: 142 ALADCSMLKSLNVNDATLG-NGVQEIPINHDQLRRLEITKCRVMRVSI-------RCPQL 193
+L CS LK LNV+ TL G + + L L+++ + ++ C +L
Sbjct: 118 SLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGEL 177
Query: 194 EHLSLKRSNMAQ--AVLNCPLLHLLDIASCHKLSDAAIRLAATSCPQLESLDMSNCSCVS 251
+HL++ + ++ V C L LD++S + S L C L+ LD+S
Sbjct: 178 KHLAISGNKISGDVDVSRCVNLEFLDVSS-NNFSTGIPFLG--DCSALQHLDISGNKLSG 234
Query: 252 DESLREIALSCANLRILNSS 271
D S R I+ +C L++LN S
Sbjct: 235 DFS-RAIS-TCTELKLLNIS 252
>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 = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 45/95 (47%), Gaps = 8/95 (8%)
Query: 567 PDGLYSLRSLQNLTMLDLSYTFLTNLEPV-FESCLQLKVLKLQACKYLTNTSLESLYKKG 625
PD LR NLT LDLS L L P F S L+VL + + SL++ K
Sbjct: 463 PDIFTELR---NLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFF---SLDTFPYK- 515
Query: 626 SLPALQELDLSYGTLCQSAIEELLAYCTHLTHVSL 660
L +LQ LD S + S +EL + + L ++L
Sbjct: 516 CLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNL 550
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 54/223 (24%), Positives = 92/223 (41%), Gaps = 17/223 (7%)
Query: 122 LRNLEALTLGRGQLGDAFFHALADCSMLKSLNV--NDATLGNGVQEIPINHDQLRRLEIT 179
L++L+ LT + G+AF + D L+ L++ N + + L+ L+++
Sbjct: 324 LKSLKRLTFTSNKGGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381
Query: 180 KCRVMRVS---IRCPQLEHLSLKRSNMAQ-----AVLNCPLLHLLDIASCHKLSDAAIRL 231
V+ +S + QLEHL + SN+ Q L+ L LDI+ H + A
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH--TRVAFNG 439
Query: 232 AATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQL 291
LE L M+ S + L +I NL L+ S C L L+ LQ+
Sbjct: 440 IFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
Query: 292 HSCEGITSASMAAISHSYM--LEVLELDNCNLLTSVSLELPRL 332
+ S+ + + L+VL+ +++TS EL
Sbjct: 499 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHF 541
>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 = 30.0 bits (66), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 21/33 (63%)
Query: 573 LRSLQNLTMLDLSYTFLTNLEPVFESCLQLKVL 605
+++L NL +LDLS+ LT+L SC QLK
Sbjct: 266 IKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYF 298
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 46/180 (25%), Positives = 75/180 (41%), Gaps = 15/180 (8%)
Query: 122 LRNLEALTLGRGQLGDAFFHALADCSMLKSLNV--NDATLGNGVQEIPINHDQLRRLEIT 179
L++L+ LT + G+AF + D L+ L++ N + + L+ L+++
Sbjct: 324 LKSLKRLTFTSNKGGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS 381
Query: 180 KCRVMRVS---IRCPQLEHLSLKRSNMAQ-----AVLNCPLLHLLDIASCHKLSDAAIRL 231
V+ +S + QLEHL + SN+ Q L+ L LDI+ H + A
Sbjct: 382 FNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTH--TRVAFNG 439
Query: 232 AATSCPQLESLDMSNCSCVSDESLREIALSCANLRILNSSYCPNISLESVRLPMLTVLQL 291
LE L M+ S + L +I NL L+ S C L L+ LQ+
Sbjct: 440 IFNGLSSLEVLKMAGNS-FQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
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
0.324 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,287,083
Number of Sequences: 62578
Number of extensions: 729633
Number of successful extensions: 2065
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 1965
Number of HSP's gapped (non-prelim): 114
length of query: 835
length of database: 14,973,337
effective HSP length: 107
effective length of query: 728
effective length of database: 8,277,491
effective search space: 6026013448
effective search space used: 6026013448
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 56 (26.2 bits)