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= 036079
(1399 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 61/238 (25%), Positives = 100/238 (42%), Gaps = 51/238 (21%)
Query: 261 VLDDVWNESYNYWSILSCPFEAVAPGSKIVVTTRNLGVTVN-MGADPAYQL---KELSND 316
+LDDVW+ S +A +I++TTR+ VT + MG P Y + L +
Sbjct: 241 ILDDVWD---------SWVLKAFDSQCQILLTTRDKSVTDSVMG--PKYVVPVESSLGKE 289
Query: 317 DCLCVLTQ-ISLGARDFSMHQSLKEVGEKIAMKCKGLPLAAKTLGSLLRGKDDPRDWEFV 375
L +L+ +++ D L E I +CKG PL +G+LLR D P WE+
Sbjct: 290 KGLEILSLFVNMKKAD------LPEQAHSIIKECKGSPLVVSLIGALLR--DFPNRWEYY 341
Query: 376 LNTDIWDLQEHKCDII------------PALGVSYHFLPPQLKQCFAYCSLFPKDYEFHE 423
L LQ + I A+ +S L +K + S+ KD +
Sbjct: 342 LKQ----LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPT 397
Query: 424 EEIILLWIAEGFLHQANSRRKLEDLGRDFVRELYSRSLFQQSSKDASLFVMHDLINDL 481
+ + +LW E ++ED+ ++FV + LF + + + +HDL D
Sbjct: 398 KVLCILWDMET--------EEVEDILQEFVNK---SLLFCDRNGKSFRYYLHDLQVDF 444
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii
Effector Xcv3220 (Xopl)
Length = 328
Score = 45.8 bits (107), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 51/176 (28%), Positives = 77/176 (43%), Gaps = 21/176 (11%)
Query: 1194 TSLEEITISWLENLKILPGGLHNLHHLQEIRIEQCPNLESFPE------GGLPYAKLTKL 1247
LE +T++ L+ LP + +L+ L+E+ I CP L PE + L L
Sbjct: 127 AGLETLTLAR-NPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNL 185
Query: 1248 EILDCE--NLKALPNCMHNLTSLLCLEIGLCPRLICKPLFEWGLNRFTSLKRLEICEGCP 1305
+ L E +++LP + NL +L L+I P P ++ L+ L++ GC
Sbjct: 186 QSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGP----AIHHLPKLEELDL-RGCT 240
Query: 1306 DLVSSP-----RFPASLTVLRISSMPNLICLSSIGENLTSLETLDLHFCPKLKYFP 1356
L + P R P +L+ S NL+ L LT LE LDL C L P
Sbjct: 241 ALRNYPPIFGGRAPLKRLILKDCS--NLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 45.1 bits (105), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 72/152 (47%), Gaps = 19/152 (12%)
Query: 937 VRSLNRLQ---ISRCPQLLSLPELQC------------RLRFLELSYCEGLTRLPQALLT 981
+ SLNRL+ I CP+L LPE L+ L L + G+ LP ++
Sbjct: 146 IASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIAN 204
Query: 982 LSSLTEMRIAHCTSLISFPEAALPSRLRTIDIEGCNALKSLPEAWMHNSYSSLQSLKIRY 1041
L +L ++I + P +L +D+ GC AL++ P + + L+ L ++
Sbjct: 205 LQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP--IFGGRAPLKRLILKD 262
Query: 1042 CKSLVSFP-EVSLPSRLRTIEIEGCYALKCLP 1072
C +L++ P ++ ++L +++ GC L LP
Sbjct: 263 CSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
Score = 38.1 bits (87), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 46/158 (29%), Positives = 71/158 (44%), Gaps = 12/158 (7%)
Query: 972 LTRLPQALLTLSSLTEMRIAHCTSLISFPEAALPSRLRTIDIEGCNALKSLPEAW----- 1026
L LP ++ +L+ L E+ I C L PE L S + + +G L+SL W
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEP-LASTDASGEHQGLVNLQSLRLEWTGIRS 197
Query: 1027 MHNSYSSLQ---SLKIRYCKSLVSFPEVSLPSRLRTIEIEGCYALKCLPEAWMENSSTSL 1083
+ S ++LQ SLKIR P + +L +++ GC AL+ P + L
Sbjct: 198 LPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIF--GGRAPL 255
Query: 1084 ESLNIYNC-NSLTHIARIQLAPSLKRLIINSCHNLRTL 1120
+ L + +C N LT I L++L + C NL L
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRL 293
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 61/238 (25%), Positives = 100/238 (42%), Gaps = 51/238 (21%)
Query: 261 VLDDVWNESYNYWSILSCPFEAVAPGSKIVVTTRNLGVTVN-MGADPAYQL---KELSND 316
+LDDVW+ S +A +I++TTR+ VT + MG P Y + L +
Sbjct: 247 ILDDVWD---------SWVLKAFDSQCQILLTTRDKSVTDSVMG--PKYVVPVESSLGKE 295
Query: 317 DCLCVLTQ-ISLGARDFSMHQSLKEVGEKIAMKCKGLPLAAKTLGSLLRGKDDPRDWEFV 375
L +L+ +++ D L E I +CKG PL +G+LLR D P WE+
Sbjct: 296 KGLEILSLFVNMKKAD------LPEQAHSIIKECKGSPLVVSLIGALLR--DFPNRWEYY 347
Query: 376 LNTDIWDLQEHKCDII------------PALGVSYHFLPPQLKQCFAYCSLFPKDYEFHE 423
L LQ + I A+ +S L +K + S+ KD +
Sbjct: 348 LKQ----LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPT 403
Query: 424 EEIILLWIAEGFLHQANSRRKLEDLGRDFVRELYSRSLFQQSSKDASLFVMHDLINDL 481
+ + +LW E ++ED+ ++FV + LF + + + +HDL D
Sbjct: 404 KVLCILWDME--------TEEVEDILQEFVNK---SLLFCDRNGKSFRYYLHDLQVDF 450
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 37.7 bits (86), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 57/236 (24%), Positives = 98/236 (41%), Gaps = 47/236 (19%)
Query: 261 VLDDVWNESYNYWSILSCPFEAVAPGSKIVVTTRNLGVTVN-MGADPAYQLKE-LSNDDC 318
+LDDVW+ W + +A +I++TTR+ VT + MG ++ L +
Sbjct: 241 ILDDVWDP----WVL-----KAFDNQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291
Query: 319 LCVLTQ-ISLGARDFSMHQSLKEVGEKIAMKCKGLPLAAKTLGSLLRGKDDPRDWEFVLN 377
L +L+ +++ D L I +CKG PL +G+LLR D P W + L
Sbjct: 292 LEILSLFVNMKKED------LPAEAHSIIKECKGSPLVVSLIGALLR--DFPNRWAYYLR 343
Query: 378 TDIWDLQEHKCDII------------PALGVSYHFLPPQLKQCFAYCSLFPKDYEFHEEE 425
LQ + I A+ +S L +K + S+ KD + +
Sbjct: 344 Q----LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKV 399
Query: 426 IILLWIAEGFLHQANSRRKLEDLGRDFVRELYSRSLFQQSSKDASLFVMHDLINDL 481
+ +LW E ++ED+ ++FV + LF + + + +HDL D
Sbjct: 400 LCVLWDLE--------TEEVEDILQEFVNK---SLLFCNRNGKSFCYYLHDLQVDF 444
>pdb|3QFL|A Chain A, Coiled-Coil Domain-Dependent Homodimerization Of
Intracellular Mla Immune Receptors Defines A Minimal
Functional Module For Triggering Cell Death
Length = 115
Score = 36.6 bits (83), Expect = 0.096, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 40/78 (51%), Gaps = 4/78 (5%)
Query: 11 ASFELLIKKLASL--ELFTQHEKLKADFMRWKDKMEMIQAVLADAED--RQTKDKSVKKW 66
A+ LI KL L E F H+ +K + ++E A L + R+ D K W
Sbjct: 1 AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESXNAALIKIGEVPREQLDSQDKLW 60
Query: 67 LDKLQNLAYDVEDILDEF 84
D+++ L+Y +ED++D+F
Sbjct: 61 ADEVRELSYVIEDVVDKF 78
>pdb|4H09|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|B Chain B, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|C Chain C, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|D Chain D, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|E Chain E, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
Length = 379
Score = 35.8 bits (81), Expect = 0.18, Method: Composition-based stats.
Identities = 40/169 (23%), Positives = 73/169 (43%), Gaps = 32/169 (18%)
Query: 1013 IEGCNALKSLPEAWMHNSYSSLQSLKIRYCKSLVSFPEVSLPSRLRTIEIEGCYALKCLP 1072
+E A K+ E + ++ ++ + Y K+L ++++ S + T+ Y K L
Sbjct: 187 LESYPAAKTGTEFTIPSTVKTVTAYGFSYGKNL---KKITITSGVTTLGDGAFYGXKALD 243
Query: 1073 EAWMENSSTSLESLNIYNCNSLTHI---ARIQLAPSLKRLIINSCHNLRTLTGEKDIRCS 1129
E + + TS+ S + NC +L + A+++ P L CS
Sbjct: 244 EIAIPKNVTSIGSFLLQNCTALKTLNFYAKVKTVPYL--------------------LCS 283
Query: 1130 SNGCTSLTPFSSENELPATLEHLEVSYCLNLAFLSRNGNLPQALKCLRV 1178
GC++LT +N TLE C+ L+ ++ LP ALK ++V
Sbjct: 284 --GCSNLTKVVXDNSAIETLEPRVFXDCVKLSSVT----LPTALKTIQV 326
Score = 32.0 bits (71), Expect = 2.8, Method: Composition-based stats.
Identities = 24/104 (23%), Positives = 50/104 (48%), Gaps = 5/104 (4%)
Query: 982 LSSLTEMRIAHCTSLISFPEAALPSRLRTIDIEGCNALKSLPEAWMHNSYSSLQSLKIRY 1041
++S+ + +CT+L + ++++T+ C+ +L + NS ++++L+ R
Sbjct: 251 VTSIGSFLLQNCTALKTL---NFYAKVKTVPYLLCSGCSNLTKVVXDNS--AIETLEPRV 305
Query: 1042 CKSLVSFPEVSLPSRLRTIEIEGCYALKCLPEAWMENSSTSLES 1085
V V+LP+ L+TI++ K L S T +ES
Sbjct: 306 FXDCVKLSSVTLPTALKTIQVYAFKNCKALSTISYPKSITLIES 349
>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 = 35.8 bits (81), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 71/257 (27%), Positives = 104/257 (40%), Gaps = 67/257 (26%)
Query: 817 WE--EWIPCGAGQEVDGFPKLRTLSL----VCCSKLQGTLPEC-LPLLEVLDIQ------ 863
W+ E + C GQ FP L+ SL +K E LP LE LD+
Sbjct: 330 WQHLELVNCKFGQ----FPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF 385
Query: 864 --CCGQL---LVTIKYLPALSGLQINGCKGVVFSSPIVPSSNQVVIFEKGLPKLEKVGI- 917
CC Q +++KYL L NG I SSN + GL +LE +
Sbjct: 386 KGCCSQSDFGTISLKYL----DLSFNGV--------ITMSSNFL-----GLEQLEHLDFQ 428
Query: 918 -------------VNVRELTYLWWSETR-------LLQDVRSLNRLQIS-RCPQLLSLPE 956
+++R L YL S T + + SL L+++ Q LP+
Sbjct: 429 HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD 488
Query: 957 LQCRLR---FLELSYCEGLTRLPQALLTLSSLTEMRIAHCT--SLISFPEAALPSRLRTI 1011
+ LR FL+LS C+ P A +LSSL + ++H SL +FP L S L+ +
Sbjct: 489 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNS-LQVL 547
Query: 1012 DIEGCNALKSLPEAWMH 1028
D + + S + H
Sbjct: 548 DYSLNHIMTSKKQELQH 564
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 35.4 bits (80), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 63/158 (39%), Gaps = 29/158 (18%)
Query: 336 QSLKEVGEKIAMKCKGLPLAAKTLGSLLRGKDDPRDWEFVLNTDIWDLQEHKCDII---- 391
+ L I +CKG PL +G+LLR D P W + L LQ + I
Sbjct: 311 EDLPAEAHSIIKECKGSPLVVSLIGALLR--DFPNRWAYYLRQ----LQNKQFKRIRKSS 364
Query: 392 --------PALGVSYHFLPPQLKQCFAYCSLFPKDYEFHEEEIILLWIAEGFLHQANSRR 443
A+ +S L +K + S+ KD + + + +LW E
Sbjct: 365 SYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLE--------TE 416
Query: 444 KLEDLGRDFVRELYSRSLFQQSSKDASLFVMHDLINDL 481
++ED+ ++FV + LF + + + +HDL D
Sbjct: 417 EVEDILQEFVNK---SLLFCNRNGKSFCYYLHDLQVDF 451
>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 = 0.32, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 62/136 (45%), Gaps = 24/136 (17%)
Query: 502 RQKFSQIFLESICDVKHLRTFLPMKLSNYEGNYLAWSVLQMLLNLPRLRVFS-------- 553
+K SQ ++ D+++ R +P K S Y+ L L+L L++F+
Sbjct: 195 HKKLSQYSIDEDDDIEN-RMVMP-KDSKYDDQ------LWHALDLSNLQIFNISANIFKY 246
Query: 554 -------LHGYCVSKLPNEIGNLKHLRFLNLSGTEIQILPESINSLYNLHTILLENCHRL 606
L+G +++LP EI NL +LR L+LS + LP + S + L + + +
Sbjct: 247 DFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFD-NMV 305
Query: 607 KKLCKDMGNLIKLHHL 622
L + GNL L L
Sbjct: 306 TTLPWEFGNLCNLQFL 321
>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 = 35.0 bits (79), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 71/257 (27%), Positives = 103/257 (40%), Gaps = 67/257 (26%)
Query: 817 WE--EWIPCGAGQEVDGFPKLRTLSL----VCCSKLQGTLPEC-LPLLEVLDIQ------ 863
W+ E + C GQ FP L+ SL +K E LP LE LD+
Sbjct: 306 WQHLELVNCKFGQ----FPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF 361
Query: 864 --CCGQL---LVTIKYLPALSGLQINGCKGVVFSSPIVPSSNQVVIFEKGLPKLEKVGI- 917
CC Q ++KYL L NG I SSN + GL +LE +
Sbjct: 362 KGCCSQSDFGTTSLKYL----DLSFNGV--------ITMSSNFL-----GLEQLEHLDFQ 404
Query: 918 -------------VNVRELTYLWWSETR-------LLQDVRSLNRLQIS-RCPQLLSLPE 956
+++R L YL S T + + SL L+++ Q LP+
Sbjct: 405 HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD 464
Query: 957 LQCRLR---FLELSYCEGLTRLPQALLTLSSLTEMRIAHCT--SLISFPEAALPSRLRTI 1011
+ LR FL+LS C+ P A +LSSL + ++H SL +FP L S L+ +
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNS-LQVL 523
Query: 1012 DIEGCNALKSLPEAWMH 1028
D + + S + H
Sbjct: 524 DYSLNHIMTSKKQELQH 540
>pdb|1S94|A Chain A, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
From The Squid Loligo Pealei
pdb|1S94|B Chain B, Crystal Structure Of The Habc Domain Of Neuronal Syntaxin
From The Squid Loligo Pealei
Length = 180
Score = 34.3 bits (77), Expect = 0.54, Method: Composition-based stats.
Identities = 36/192 (18%), Positives = 76/192 (39%), Gaps = 33/192 (17%)
Query: 38 RWKDKMEMIQAVLADAEDRQTKDKSV-------KKWLDKLQNLAYDVEDILDEFETEALR 90
R KD++ ++A ++D ED + V +++ ++++ + ++ I D + +
Sbjct: 6 RTKDRLAALKAAVSDEEDVEEVAVQVDSGGGFMEEFFEQVEEIRAMIDKISDNVDAVKKK 65
Query: 91 REMLLQGPAAADQAVKEVTARLQDIERDINLLKLKNVISGGTSRSIAQRLPTTSLVNEAK 150
+L P DQ +E+ + DI+R T+ + +L T L E +
Sbjct: 66 HSDILSAPQTDDQMKEELEELMTDIKR--------------TANKVRGKLKTIELNIEQE 111
Query: 151 VYGREKDKEAIVEXXXXXXXXXXXGFSVISINGMGGVGKTTLAQLVYNDD---RVQRHFE 207
+ + + + +S IS + + Q+ Y D R++R E
Sbjct: 112 EHSNKSSADLRIRKTQ---------YSTISRKFVEVMSDYNTTQIDYRDRCKARIKRQME 162
Query: 208 IKAWTCVSEEFD 219
I T +EE +
Sbjct: 163 ITGRTTTNEELE 174
>pdb|3UN0|B Chain B, Crystal Structure Of Mdc1 Fha Domain
pdb|3UN0|A Chain A, Crystal Structure Of Mdc1 Fha Domain
Length = 115
Score = 33.5 bits (75), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 922 ELTYLWWSETRLLQDVRSLNRLQISRCPQLLSLPELQCRLRFLEL 966
E+ L W + +L+D SLN QI R P++LS P + RLR EL
Sbjct: 54 EIEILAWDKAPILRDCGSLNGTQILRPPKVLS-PGVSHRLRDQEL 97
>pdb|3UMZ|A Chain A, Crystal Structure Of The Human Mdc1 Fha Domain
pdb|3UMZ|B Chain B, Crystal Structure Of The Human Mdc1 Fha Domain
pdb|3UNM|A Chain A, Crystal Structure Of The Human Mdc1 Fha Domain
pdb|3UNM|B Chain B, Crystal Structure Of The Human Mdc1 Fha Domain
pdb|3UNN|A Chain A, Monomeric Structure Of The Human Mdc1 Fha Domain In
Complex With An Mdc1 Phospho-T4 Peptide
Length = 113
Score = 33.5 bits (75), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 922 ELTYLWWSETRLLQDVRSLNRLQISRCPQLLSLPELQCRLRFLEL 966
E+ L W + +L+D SLN QI R P++LS P + RLR EL
Sbjct: 52 EIEILAWDKAPILRDCGSLNGTQILRPPKVLS-PGVSHRLRDQEL 95
>pdb|3UOT|A Chain A, Crystal Structure Of Mdc1 Fha Domain In Complex With A
Phosphorylated Peptide From The Mdc1 N-Terminus
pdb|3UOT|B Chain B, Crystal Structure Of Mdc1 Fha Domain In Complex With A
Phosphorylated Peptide From The Mdc1 N-Terminus
Length = 122
Score = 33.1 bits (74), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)
Query: 922 ELTYLWWSETRLLQDVRSLNRLQISRCPQLLSLPELQCRLRFLEL 966
E+ L W + +L+D SLN QI R P++LS P + RLR EL
Sbjct: 61 EIEILAWDKAPILRDCGSLNGTQILRPPKVLS-PGVSHRLRDQEL 104
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 33.1 bits (74), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 35/61 (57%), Gaps = 2/61 (3%)
Query: 529 NYEGNYLAWSVLQMLLNLPRLRVFSLHGYCVSKLPNEIGNLKHLRFLNLSGTEIQILPES 588
N N L SV + L P+++V LH + +P ++ +L+ L+ LN++ +++ +P+
Sbjct: 434 NLSSNMLTGSVFRCLP--PKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDG 491
Query: 589 I 589
+
Sbjct: 492 V 492
>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 = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 39/182 (21%), Positives = 82/182 (45%), Gaps = 15/182 (8%)
Query: 447 DLGRDFVRELYSRSLFQQSSKDASLFVMHDLINDLTQWAAGGRCFRMDD--KFEGENRQK 504
DL + ++F+QS K A+ F+ + C + +F+G ++
Sbjct: 544 DLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQ 603
Query: 505 FSQIFLESICDVK------HLR-TF---LPMKLSNYEGNYLAWSVLQMLLNLPRLRVFSL 554
+++ + C++ H TF M + N L+ + + + ++P L + +L
Sbjct: 604 LNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNL 663
Query: 555 -HGYCVSKLPNEIGNLKHLRFLNLSGTEIQI-LPESINSLYNLHTILLENCHRLKKLCKD 612
H +P+E+G+L+ L L+LS ++ +P+++++L L I L N + L +
Sbjct: 664 GHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSN-NNLSGPIPE 722
Query: 613 MG 614
MG
Sbjct: 723 MG 724
>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 = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 36/182 (19%), Positives = 79/182 (43%), Gaps = 15/182 (8%)
Query: 447 DLGRDFVRELYSRSLFQQSSKDASLFVMHDLINDLTQWAAGGRCFRMDD--KFEGENRQK 504
DL + ++F+QS K A+ F+ + C + +F+G ++
Sbjct: 541 DLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQ 600
Query: 505 FSQIFLESICDVKH----------LRTFLPMKLSNYEGNYLAWSVLQMLLNLPRLRVFSL 554
+++ + C++ M + N L+ + + + ++P L + +L
Sbjct: 601 LNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNL 660
Query: 555 -HGYCVSKLPNEIGNLKHLRFLNLSGTEIQI-LPESINSLYNLHTILLENCHRLKKLCKD 612
H +P+E+G+L+ L L+LS ++ +P+++++L L I L N + L +
Sbjct: 661 GHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSN-NNLSGPIPE 719
Query: 613 MG 614
MG
Sbjct: 720 MG 721
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 32.7 bits (73), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 27/43 (62%)
Query: 547 PRLRVFSLHGYCVSKLPNEIGNLKHLRFLNLSGTEIQILPESI 589
PR++V LH + +P ++ L+ L+ LN++ +++ +P+ I
Sbjct: 421 PRIKVLDLHSNKIKSIPKQVVKLEALQELNVASNQLKSVPDGI 463
>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 = 32.7 bits (73), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 46/88 (52%), Gaps = 3/88 (3%)
Query: 516 VKHLRTFLPMKLSNYEGNYLAWSVLQMLLNLPRLRVFSLHGYCVSKLPNEIGNLKHLRFL 575
V+HL + LS + + S+L LL L +++ G P L +LR L
Sbjct: 244 VRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVG--GQLAVVEPYAFRGLNYLRVL 301
Query: 576 NLSGTEIQILPESI-NSLYNLHTILLEN 602
N+SG ++ L ES+ +S+ NL T++L++
Sbjct: 302 NVSGNQLTTLEESVFHSVGNLETLILDS 329
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 31.6 bits (70), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 69/255 (27%), Positives = 98/255 (38%), Gaps = 77/255 (30%)
Query: 817 WE--EWIPCGAGQEVDGFPKLRTLSL----VCCSKLQGTLPEC-LPLLEVLDIQ------ 863
W+ E + C GQ FP L+ SL +K E LP LE LD+
Sbjct: 306 WQHLELVNCKFGQ----FPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF 361
Query: 864 --CCGQL---LVTIKYLPALSGLQINGCKGVVFSSPIVPSSNQVVIFEKGLPKLEKVGI- 917
CC Q ++KYL L NG I SSN + GL +LE +
Sbjct: 362 KGCCSQSDFGTTSLKYL----DLSFNGV--------ITMSSNFL-----GLEQLEHLDFQ 404
Query: 918 -------------VNVRELTYLWWSETR-------LLQDVRSLNRLQIS-RCPQLLSLPE 956
+++R L YL S T + + SL L+++ Q LP+
Sbjct: 405 HSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD 464
Query: 957 LQCRLR---FLELSYCEGLTRLPQALLTLSSLTEMRIAHCTSLISFPEAALPSRLRTIDI 1013
+ LR FL+LS C+ P A +LSSL + +A L S P+
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMA-SNQLKSVPDGIF--------- 514
Query: 1014 EGCNALKSLPEAWMH 1028
+ L SL + W+H
Sbjct: 515 ---DRLTSLQKIWLH 526
>pdb|3MOE|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Beta-Sulfopyruvate And Gtp
pdb|3MOF|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Oxalate And Gtp
pdb|3MOF|B Chain B, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Oxalate And Gtp
pdb|3MOH|A Chain A, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Phosphoglycolate And Gdp
pdb|3MOH|B Chain B, The Structure Of Rat Cytosolic Pepck Mutant A467g In
Complex With Phosphoglycolate And Gdp
Length = 624
Score = 31.6 bits (70), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 706 TDISDAAEVETRVLDKLEPHQKLEKLTITGYGGTKFPNWLGESSFLKLLFLRFEGCGKCT 765
TD D A +E++ + + ++ + + I G ++ W+ E F K RF GC K
Sbjct: 82 TDPRDVARIESKTV--IITQEQRDTVPIPKSGQSQLGRWMSEEDFEKAFNARFPGCMKGR 139
Query: 766 SL 767
++
Sbjct: 140 TM 141
>pdb|2QF2|A Chain A, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid And
Gdp.
pdb|2QF2|B Chain B, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid And
Gdp.
pdb|2QEW|A Chain A, Rat Cytosolic Pepck, In Complex With Manganese Ion.
pdb|2QEY|A Chain A, Rat Cytosolic Pepck In Complex With Gtp
pdb|2QF1|A Chain A, Rat Cytosolic Pepck In Complex With Oxaloacetic Acid.
pdb|2RK7|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate
pdb|2RK7|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate
pdb|2RK8|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphonoformate
pdb|2RK8|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphonoformate
pdb|2RKA|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate
pdb|2RKA|C Chain C, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate
pdb|2RKD|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With 3-
Phosphonopropionate
pdb|2RKE|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Sulfoacetate.
pdb|3DT2|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT4|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT4|C Chain C, The Structure Of Rat Cytosolic Pepck In Complex With
Oxalate And Gtp
pdb|3DT7|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With Beta-
Sulfopyruvate And Gtp
pdb|3DT7|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With Beta-
Sulfopyruvate And Gtp
pdb|3DTB|A Chain A, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate And Gdp
pdb|3DTB|B Chain B, The Structure Of Rat Cytosolic Pepck In Complex With
Phosphoglycolate And Gdp
Length = 624
Score = 31.6 bits (70), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 706 TDISDAAEVETRVLDKLEPHQKLEKLTITGYGGTKFPNWLGESSFLKLLFLRFEGCGKCT 765
TD D A +E++ + + ++ + + I G ++ W+ E F K RF GC K
Sbjct: 82 TDPRDVARIESKTV--IITQEQRDTVPIPKSGQSQLGRWMSEEDFEKAFNARFPGCMKGR 139
Query: 766 SL 767
++
Sbjct: 140 TM 141
>pdb|3F4R|A Chain A, Crystal Structure Of Wolbachia Pipientis Alpha-Dsba1
Length = 226
Score = 31.2 bits (69), Expect = 4.4, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 41/81 (50%), Gaps = 7/81 (8%)
Query: 1082 SLESLNIYNCNSLTHIARIQLAPSLKRLIINSCHN----LRTLTGEKDIRCSSNGCTSLT 1137
S++S N YN + LT + RI +LK+ N C N + + +K + + G T+ T
Sbjct: 114 SIDSWNYYNLSDLTLLQRIAALSNLKQDAFNQCINDKKIMDKIVNDKSLAINKLGITA-T 172
Query: 1138 P--FSSENELPATLEHLEVSY 1156
P F N+ + +EH +V +
Sbjct: 173 PIFFIKLNDDKSYIEHNKVKH 193
>pdb|1KHB|A Chain A, Pepck Complex With Nonhydrolyzable Gtp Analog, Native Data
pdb|1KHF|A Chain A, Pepck Complex With Pep
pdb|1KHG|A Chain A, Pepck
pdb|1M51|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|1NHX|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|2GMV|A Chain A, Pepck Complex With A Gtp-Competitive Inhibitor
pdb|2GMV|B Chain B, Pepck Complex With A Gtp-Competitive Inhibitor
Length = 625
Score = 30.8 bits (68), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 2/62 (3%)
Query: 706 TDISDAAEVETRVLDKLEPHQKLEKLTITGYGGTKFPNWLGESSFLKLLFLRFEGCGKCT 765
TD D A +E++ + + ++ + + I G ++ W+ E F K RF GC K
Sbjct: 83 TDPRDVARIESKTV--IVTQEQRDTVPIPKTGLSQLGRWMSEEDFEKAFNARFPGCMKGR 140
Query: 766 SL 767
++
Sbjct: 141 TM 142
>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 = 30.8 bits (68), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 69/256 (26%), Positives = 105/256 (41%), Gaps = 42/256 (16%)
Query: 971 GLTRLPQALLTLSSLTEMRIAHCTSLISFPEAALPSRLRTIDIEGCN--ALKSLPEAWMH 1028
GL+ LP+ L SL +A C SL PE LP L+++ ++ N AL LP +
Sbjct: 82 GLSSLPELPPHLESL----VASCNSLTELPE--LPQSLKSLLVDNNNLKALSDLPPLLEY 135
Query: 1029 NSYSSLQSLKIRYCKSLVSFPEVSLPSRLRTIEIEGCYALKCLPEAWMENSSTSLESLNI 1088
S+ Q L PE+ S L+ I+++ +LK LP+ SLE +
Sbjct: 136 LGVSNNQ---------LEKLPELQNSSFLKIIDVDNN-SLKKLPDL-----PPSLEFIAA 180
Query: 1089 YNCNSLTHIARIQLAPSLKRLII--NSCHNLRTLTGEKDIRCSSNGCTSLTPFSSENELP 1146
N N L + +Q P L + NS L L + + N ELP
Sbjct: 181 GN-NQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILE--------ELP 231
Query: 1147 --ATLEHLEVSYCLNLAFLSRNGNLPQALKCLRVR--FCSKLESFAESLDNTSLEEITIS 1202
L L Y N L +LP +L+ L VR + + L +SL + +++ +
Sbjct: 232 ELQNLPFLTTIYADN-NLLKTLPDLPPSLEALNVRDNYLTDLPELPQSL---TFLDVSEN 287
Query: 1203 WLENLKILPGGLHNLH 1218
L LP L+ L+
Sbjct: 288 IFSGLSELPPNLYYLN 303
>pdb|3F4S|A Chain A, Crystal Structure Of Wolbachia Pipientis Alpha-Dsba1 T172v
Length = 226
Score = 30.4 bits (67), Expect = 6.6, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 41/80 (51%), Gaps = 5/80 (6%)
Query: 1082 SLESLNIYNCNSLTHIARIQLAPSLKRLIINSCHN----LRTLTGEKDIRCSSNGCTSLT 1137
S++S N YN + LT + RI +LK+ N C N + + +K + + G T++
Sbjct: 114 SIDSWNYYNLSDLTLLQRIAALSNLKQDAFNQCINDKKIMDKIVNDKSLAINKLGITAVP 173
Query: 1138 PFSSE-NELPATLEHLEVSY 1156
F + N+ + +EH +V +
Sbjct: 174 IFFIKLNDDKSYIEHNKVKH 193
>pdb|1VQZ|A Chain A, Crystal Structure Of A Putative Lipoate-Protein Ligase A
(Sp_1160) From Streptococcus Pneumoniae Tigr4 At 1.99 A
Resolution
Length = 341
Score = 30.4 bits (67), Expect = 7.6, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 423 EEEIILLWIAEGFLHQANSRRKLEDLGRDFVRE 455
E++I LLWI + + + +E++ RD+VRE
Sbjct: 40 EDQIFLLWINKPSIIVGRHQNTIEEINRDYVRE 72
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 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 39,014,951
Number of Sequences: 62578
Number of extensions: 1548369
Number of successful extensions: 3456
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 30
Number of HSP's that attempted gapping in prelim test: 3393
Number of HSP's gapped (non-prelim): 79
length of query: 1399
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1288
effective length of database: 8,027,179
effective search space: 10339006552
effective search space used: 10339006552
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: 58 (26.9 bits)