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= 000874
(1243 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana
Length = 176
Score = 140 bits (353), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 76/174 (43%), Positives = 108/174 (62%), Gaps = 5/174 (2%)
Query: 1 MASSSSCNYDVFLSFRGVDTRASFTCHLYDSLFERKKIRTFIDDEELRQGDAISPVLLNA 60
M+S ++ YDVFLSFRG DTR +F LY L R+ IRTF DD+EL G SP L +
Sbjct: 1 MSSHTATKYDVFLSFRGHDTRHNFISFLYKELV-RRSIRTFKDDKELENGQRFSPELKSP 59
Query: 61 IQGSKISLIIFSKDYASSKWCLNELVKILECKNTNGQIVIPVFYNVSPSDVRHQTGIFGD 120
I+ S+ ++++ S++YA+S WCL+ELV I++ + V+P+FY V P+ VR QTG+ +
Sbjct: 60 IEVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAE 119
Query: 121 GFDKLEQQFKEKPEIVQKWRYALRETSHLAGHESTKFRHDAQLVNKIVEDILKK 174
F K +E PE V KWR AL + L+G S D++LV+KI +I K
Sbjct: 120 QFKK--HASREDPEKVLKWRQALTNFAQLSGDCSGD--DDSKLVDKIANEISNK 169
>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
pdb|3OZI|B Chain B, Crystal Structure Of The Tir Domain From The Flax Disease
Resistance Protein L6
Length = 204
Score = 134 bits (337), Expect = 3e-31, Method: Compositional matrix adjust.
Identities = 78/177 (44%), Positives = 101/177 (57%), Gaps = 4/177 (2%)
Query: 2 ASSSSCNYDVFLSFRGVDTRASFTCHLYDSLFERKKIRTFIDDEELRQGDAISPVLLNAI 61
S S Y+VFLSFRG DTR FT LY SL R KI TF DD+EL +G I P LL AI
Sbjct: 29 GSFPSVEYEVFLSFRGPDTREQFTDFLYQSL-RRYKIHTFRDDDELLKGKEIGPNLLRAI 87
Query: 62 QGSKISLIIFSKDYASSKWCLNELVKILECKNTNG-QIVIPVFYNVSPSDVRHQTGIFGD 120
SKI + I S YA SKWCL EL +I+ + + +I++P+FY V PSDVRHQTG +
Sbjct: 88 DQSKIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKK 147
Query: 121 GFDKLEQQFKEKPEIVQKWRYALRETSHLAGHESTKFRHDAQLVNKIVEDILKKLEK 177
F K +F + +Q W+ AL++ L G K + +K+ DI + K
Sbjct: 148 AFRKHANKF--DGQTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHISK 202
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 51.2 bits (121), Expect = 4e-06, Method: Composition-based stats.
Identities = 66/232 (28%), Positives = 88/232 (37%), Gaps = 48/232 (20%)
Query: 582 QLPDGIDYLPKNLRYLHWYKYPLRTLPSNFKPKN-IVELSLRFSKVEQIWEGKKKAFKLK 640
+LPD L L + PLR LP++ N + ELS+R E + L
Sbjct: 118 ELPDTXQQF-AGLETLTLARNPLRALPASIASLNRLRELSIRACP-----ELTELPEPLA 171
Query: 641 SIDLSHSEHLIRIPDLSEIPNLERIYLSNCTNLVHVPASIQNFKYLKFPQISGKITRLYL 700
S D S EH + NL+ + L T + +PASI N + LK L +
Sbjct: 172 STDAS-GEH-------QGLVNLQSLRLE-WTGIRSLPASIANLQNLK---------SLKI 213
Query: 701 SQSAIEEVPSSIECLTDLVELDLRDCKRLKRISTRFCKLKSLVKLCLDDCLNLERFPEIL 760
S + + +I L L ELDLR C L+ F L +L L DC NL
Sbjct: 214 RNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNL------- 266
Query: 761 EEMEHLKRIYLERTAITELPSSFENLLGLEFLTVSGCSKLDKLPDNIGNLKS 812
LP L LE L + GC L +LP I L +
Sbjct: 267 ----------------LTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
Score = 37.4 bits (85), Expect = 0.052, Method: Composition-based stats.
Identities = 46/246 (18%), Positives = 90/246 (36%), Gaps = 29/246 (11%)
Query: 753 LERFPEILEEMEHLKRIYLERTAITELPSSFENLLGLEFLTVSGCSKLDKLPDNIGNLKS 812
L +FP+ + HL+ ++ + ELP + + GLE LT++ + L LP +I +L
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASIASLNR 151
Query: 813 LDFIAAVG-SAISQLPSSVADSNVXXXXXXXXXXXXXXXXXXXXXXXXXXXXXYISDCAV 871
L ++ +++LP +A ++ + +
Sbjct: 152 LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLR----------------LEWTGI 195
Query: 872 TEIPQDIACXXXXXXXXXXXXXFESLPASIKXXXXXXXXYLKDCKMLQSLPEL---PLCL 928
+P IA +L +I L+ C L++ P + L
Sbjct: 196 RSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPL 255
Query: 929 KYLDLRDCNTXXXXXXXXXXXXXXKARNCKGLQSLPEIPSCLQELDASVL--------EK 980
K L L+DC+ + + +G +L +PS + +L A+ + +
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQ 315
Query: 981 LSKHSP 986
L +H P
Sbjct: 316 LDQHRP 321
Score = 37.4 bits (85), Expect = 0.056, Method: Composition-based stats.
Identities = 23/93 (24%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 749 DCLNLERFPEILEEMEHLKRIYLERTAITELPSSFENLLGLEFLTVSGCSKLDKLPDNIG 808
D L P+ ++ L+ + L R + LP+S +L L L++ C +L +LP+ +
Sbjct: 112 DAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLA 171
Query: 809 N---------LKSLDFIAAVGSAISQLPSSVAD 832
+ L +L + + I LP+S+A+
Sbjct: 172 STDASGEHQGLVNLQSLRLEWTGIRSLPASIAN 204
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 43.5 bits (101), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 82/331 (24%), Positives = 136/331 (41%), Gaps = 60/331 (18%)
Query: 213 VGIWGMGGIGKTTLATAIFNQFSSEFEGRCFMSDVRRNS----ETGGGLEHLQKQMLSTI 268
V I+GM G GK+ LA S EG CF V S + G L LQ +
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 207
Query: 269 LSEKLEVAGPNIPQFTKERVRRM------KVLIVLDDVNKVGQLEGLIGGLDQYGPGSRI 322
E P + K+R+R + + L++LDDV L+ + +I
Sbjct: 208 QEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKA-------FDNQCQI 260
Query: 323 VVTTRDKGVLEKFGVEEEKIYGVNGLEFDEAFELFCNFAFEENHCPEDLNWHSRRVVWYA 382
++TTRDK V + + + +GL ++ E+ F N EDL + ++
Sbjct: 261 LLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV---NMKKEDLPAEAHSIIKEC 317
Query: 383 TSNPLVLKVLGSSLCLKRKSHWENVLDDLN-----RICESEIHD---IYDILKISFNELI 434
+PLV+ ++G +L + W L L RI +S +D + + + IS L
Sbjct: 318 KGSPLVVSLIG-ALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLR 376
Query: 435 PREKSMFLDIACFFEGEDKDI-----LMRILDDSESYA----LGVLIDKSLITISHN--- 482
K + D++ KD+ ++ +L D E+ L ++KSL+ + N
Sbjct: 377 EDIKDYYTDLSIL----QKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKS 432
Query: 483 -CLQMHDL------------LQEMGRQIVRQ 500
C +HDL LQ++ R++V Q
Sbjct: 433 FCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQ 463
>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 = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 44/102 (43%), Gaps = 25/102 (24%)
Query: 695 ITRLYLSQSAIEEVPSSIECLTDLVELDLRDCKRLKRISTRFCKLKSLVKLCLDDCLNLE 754
+TRLYL+ +++ E+P+ I+ L++L LDL R L + + C
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLS--------HNRLTSLPAELGSCF------- 293
Query: 755 RFPEILEEMEHLKRIYLERTAITELPSSFENLLGLEFLTVSG 796
LK Y +T LP F NL L+FL V G
Sbjct: 294 ----------QLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEG 325
Score = 36.2 bits (82), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 1/62 (1%)
Query: 766 LKRIYLERTAITELPSSFENLLGLEFLTVSGCSKLDKLPDNIGNLKSLDFIAAVGSAISQ 825
L R+YL ++TELP+ +NL L L +S ++L LP +G+ L + + ++
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAELGSCFQLKYFYFFDNMVTT 307
Query: 826 LP 827
LP
Sbjct: 308 LP 309
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 81/331 (24%), Positives = 135/331 (40%), Gaps = 60/331 (18%)
Query: 213 VGIWGMGGIGKTTLATAIFNQFSSEFEGRCFMSDVRRNS----ETGGGLEHLQKQMLSTI 268
V I+GM G GK+ LA S EG CF V S + G L LQ +
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSL-LEG-CFSGGVHWVSIGKQDKSGLLMKLQNLCMRLD 214
Query: 269 LSEKLEVAGPNIPQFTKERVRRM------KVLIVLDDVNKVGQLEGLIGGLDQYGPGSRI 322
E P + K+R+R + + L++LDDV L+ + +I
Sbjct: 215 QEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKA-------FDNQCQI 267
Query: 323 VVTTRDKGVLEKFGVEEEKIYGVNGLEFDEAFELFCNFAFEENHCPEDLNWHSRRVVWYA 382
++TT DK V + + + +GL ++ E+ F N EDL + ++
Sbjct: 268 LLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV---NMKKEDLPAEAHSIIKEC 324
Query: 383 TSNPLVLKVLGSSLCLKRKSHWENVLDDLN-----RICESEIHD---IYDILKISFNELI 434
+PLV+ ++G +L + W L L RI +S +D + + + IS L
Sbjct: 325 KGSPLVVSLIG-ALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLR 383
Query: 435 PREKSMFLDIACFFEGEDKDI-----LMRILDDSESYA----LGVLIDKSLITISHN--- 482
K + D++ KD+ ++ +L D E+ L ++KSL+ + N
Sbjct: 384 EDIKDYYTDLSIL----QKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKS 439
Query: 483 -CLQMHDL------------LQEMGRQIVRQ 500
C +HDL LQ++ R++V Q
Sbjct: 440 FCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQ 470
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 39.7 bits (91), Expect = 0.011, Method: Composition-based stats.
Identities = 43/156 (27%), Positives = 75/156 (48%), Gaps = 14/156 (8%)
Query: 663 ERIYLSNCTNLVHVPASIQNFKYLKFPQISGKITRLYLSQSAIEEV-PSSIECLTDLVEL 721
+RI+L + HVPA+ +F+ + +T L+L + + + ++ L L +L
Sbjct: 35 QRIFLHG-NRISHVPAA--SFRACR------NLTILWLHSNVLARIDAAAFTGLALLEQL 85
Query: 722 DLRDCKRLKRIS-TRFCKLKSLVKLCLDDCLNLERFPEILEEMEHLKRIYLERTAITELP 780
DL D +L+ + F L L L LD C E P + + L+ +YL+ A+ LP
Sbjct: 86 DLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP 145
Query: 781 -SSFENLLGLEFLTVSGCSKLDKLPDN-IGNLKSLD 814
+F +L L L + G +++ +P+ L SLD
Sbjct: 146 DDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLD 180
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 39.7 bits (91), Expect = 0.011, Method: Composition-based stats.
Identities = 43/156 (27%), Positives = 75/156 (48%), Gaps = 14/156 (8%)
Query: 663 ERIYLSNCTNLVHVPASIQNFKYLKFPQISGKITRLYLSQSAIEEV-PSSIECLTDLVEL 721
+RI+L + HVPA+ +F+ + +T L+L + + + ++ L L +L
Sbjct: 34 QRIFLHG-NRISHVPAA--SFRACR------NLTILWLHSNVLARIDAAAFTGLALLEQL 84
Query: 722 DLRDCKRLKRIS-TRFCKLKSLVKLCLDDCLNLERFPEILEEMEHLKRIYLERTAITELP 780
DL D +L+ + F L L L LD C E P + + L+ +YL+ A+ LP
Sbjct: 85 DLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALP 144
Query: 781 -SSFENLLGLEFLTVSGCSKLDKLPDN-IGNLKSLD 814
+F +L L L + G +++ +P+ L SLD
Sbjct: 145 DDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLD 179
>pdb|3H16|A Chain A, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|B Chain B, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|C Chain C, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
pdb|3H16|D Chain D, Crystal Structure Of A Bacteria Tir Domain, Pdtir From
Paracoccus Denitrificans
Length = 154
Score = 38.9 bits (89), Expect = 0.021, Method: Composition-based stats.
Identities = 24/108 (22%), Positives = 53/108 (49%), Gaps = 2/108 (1%)
Query: 4 SSSCNYDVFLSFRGVDTRASFTCHLYDSLFERKKIRTFIDDEELRQGDAISPVLLNAIQG 63
+S+ +D+F+S D +A F L +L + DD LR GD++ + +
Sbjct: 16 TSAPPHDIFISHAWED-KADFVEALAHTL-RAAGAEVWYDDFSLRPGDSLRRSIDKGLGS 73
Query: 64 SKISLIIFSKDYASSKWCLNELVKILECKNTNGQIVIPVFYNVSPSDV 111
S+ +++ S + +W EL + + +++ ++P+++ VS +V
Sbjct: 74 SRFGIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEV 121
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 38.5 bits (88), Expect = 0.023, Method: Composition-based stats.
Identities = 44/156 (28%), Positives = 79/156 (50%), Gaps = 14/156 (8%)
Query: 663 ERIYLSNCTNLVHVPASIQNFKYLKFPQISGKITRLYLSQSAIEEV-PSSIECLTDLVEL 721
+RI+L + +VPA+ +F+ + +T L+L +A+ + ++ LT L +L
Sbjct: 34 QRIFLHG-NRISYVPAA--SFQSCR------NLTILWLHSNALAGIDAAAFTGLTLLEQL 84
Query: 722 DLRDCKRLKRIS-TRFCKLKSLVKLCLDDCLNLERFPEILEEMEHLKRIYLERTAITELP 780
DL D +L+ + T F L L L LD C E P + + L+ +YL+ + LP
Sbjct: 85 DLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALP 144
Query: 781 -SSFENLLGLEFLTVSGCSKLDKLPDN-IGNLKSLD 814
++F +L L L + G +++ +P++ L SLD
Sbjct: 145 DNTFRDLGNLTHLFLHG-NRIPSVPEHAFRGLHSLD 179
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 36.6 bits (83), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 45/182 (24%), Positives = 83/182 (45%), Gaps = 30/182 (16%)
Query: 546 LDSRAFTNMSNLRMLKFYVPKFLGMIIEEKLEDSKVQLPDGIDYLPKNLRYLHWYKYPLR 605
L + F ++NL+ L +++E +L+ LPDG+ NL YL+ Y L+
Sbjct: 100 LPNGVFDKLTNLKEL---------VLVENQLQ----SLPDGVFDKLTNLTYLYLYHNQLQ 146
Query: 606 TLPSNF--KPKNIVELSLRFSKVEQIWEGK-KKAFKLKSIDLSHSEHLIRIPD--LSEIP 660
+LP K N+ L L ++++ + EG K +LK + L+ ++ L +PD +
Sbjct: 147 SLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLNDNQ-LKSVPDGVFDRLT 205
Query: 661 NLERIYLSN------CTNLVHVPASIQN-----FKYLKFPQISGKITRLYLSQSAIEEVP 709
+L I+L N C++++++ I F YL S + + A+ E
Sbjct: 206 SLTHIWLLNNPWDCACSDILYLSRWISQHPGLVFGYLNLDPDSARCSGTNTPVRAVTEAS 265
Query: 710 SS 711
+S
Sbjct: 266 TS 267
>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 = 35.8 bits (81), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 63/127 (49%), Gaps = 19/127 (14%)
Query: 546 LDSRAFTNMSNLRMLKFYVPKFLGMIIEEKLEDSKVQLPDGIDYLPKNLRYLHWYKYPLR 605
L + F ++NL+ L +++E +L+ LPDG+ NL YL+ L+
Sbjct: 100 LPNGVFDKLTNLKEL---------VLVENQLQ----SLPDGVFDKLTNLTYLNLAHNQLQ 146
Query: 606 TLPSNF--KPKNIVELSLRFSKVEQIWEGK-KKAFKLKSIDLSHSEHLIRIPD--LSEIP 660
+LP K N+ EL L +++++ + EG K +LK + L + L +PD +
Sbjct: 147 SLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL-YQNQLKSVPDGVFDRLT 205
Query: 661 NLERIYL 667
+L+ I+L
Sbjct: 206 SLQYIWL 212
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 40/143 (27%), Positives = 67/143 (46%), Gaps = 3/143 (2%)
Query: 693 GKITRLYLSQSAIEEVPS-SIECLTDLVELDLRDCKRLKRISTRFCKLKSLVKLCLDDCL 751
+ L L + + +PS + E L+ L EL LR+ S F ++ SL++L L +
Sbjct: 123 ASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELK 182
Query: 752 NLERFPE-ILEEMEHLKRIYLERTAITELPSSFENLLGLEFLTVSGCSKLDKLPDNIGNL 810
LE E E + +LK + L I ++P+ L+GLE L +SG + P + L
Sbjct: 183 KLEYISEGAFEGLFNLKYLNLGMCNIKDMPN-LTPLVGLEELEMSGNHFPEIRPGSFHGL 241
Query: 811 KSLDFIAAVGSAISQLPSSVADS 833
SL + + S +S + + D
Sbjct: 242 SSLKKLWVMNSQVSLIERNAFDG 264
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 33.5 bits (75), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 38/78 (48%), Gaps = 11/78 (14%)
Query: 897 LPASIKXXXXXXXXYLKDC-KMLQSLPELPLCLKYLDLRDCNTXXXXXXXXXXXXXXKAR 955
LPAS++ YL C L +LPELP LK+LD+ D N A
Sbjct: 98 LPASLE--------YLDACDNRLSTLPELPASLKHLDV-DNNQLTXLPELPALLEYINAD 148
Query: 956 NCKGLQSLPEIPSCLQEL 973
N + L LPE+P+ L+ L
Sbjct: 149 NNQ-LTXLPELPTSLEVL 165
>pdb|2QE7|D Chain D, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|E Chain E, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
pdb|2QE7|F Chain F, Crystal Structure Of The F1-Atpase From The
Thermoalkaliphilic Bacterium Bacillus Sp. Ta2.A1
Length = 462
Score = 32.0 bits (71), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 213 VGIWGMGGIGKTTLATAIFNQFSSEFEGRCFMSDVRRNSETGGGLEHLQKQMLSTILSEK 272
+G++G G+GKT L + N + E G + V + G L H K S ++S+
Sbjct: 147 IGLFGGAGVGKTVLIQELINNVAQEHGGLSVFAGVGERTREGNDLYHEMKD--SGVISKT 204
Query: 273 LEVAGP-NIPQFTKERV 288
V G N P + RV
Sbjct: 205 SMVFGQMNEPPGARLRV 221
>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 = 3.2, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 7/140 (5%)
Query: 698 LYLSQSAIEEVPSSIECLTDLVELDLRDCKRLKRIS--TRFCKLKSLVKLCLDDCLNLER 755
L LS + + + S+ L L LD + LK++S + F L++L+ L +
Sbjct: 378 LDLSFNGVITMSSNFLGLEQLEHLDFQH-SNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 436
Query: 756 FPEILEEMEHLKRIYLERTAITE--LPSSFENLLGLEFLTVSGCSKLDKL-PDNIGNLKS 812
F I + L+ + + + E LP F L L FL +S C +L++L P +L S
Sbjct: 437 FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSS 495
Query: 813 LDFIAAVGSAISQLPSSVAD 832
L + + + +P + D
Sbjct: 496 LQVLNMASNQLKSVPDGIFD 515
>pdb|1SKY|E Chain E, Crystal Structure Of The Nucleotide Free Alpha3beta3
Sub-Complex Of F1-Atpase From The Thermophilic Bacillus
Ps3
Length = 473
Score = 31.2 bits (69), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 3/77 (3%)
Query: 213 VGIWGMGGIGKTTLATAIFNQFSSEFEGRCFMSDVRRNSETGGGLEHLQKQMLSTILSEK 272
+G++G G+GKT L + + + E G + V + G L H K S ++S+
Sbjct: 154 IGLFGGAGVGKTVLIQELIHNIAQEHGGISVFAGVGERTREGNDLYHEMKD--SGVISKT 211
Query: 273 LEVAGP-NIPQFTKERV 288
V G N P + RV
Sbjct: 212 AMVFGQMNEPPGARMRV 228
>pdb|4EC5|A Chain A, Crystal Structure Of The S210c (dimer) Mutant From The
N-terminal Domain Of The Secretin Xcpq From Pseudomonas
Aeruginosa
pdb|4EC5|B Chain B, Crystal Structure Of The S210c (dimer) Mutant From The
N-terminal Domain Of The Secretin Xcpq From Pseudomonas
Aeruginosa
Length = 246
Score = 30.8 bits (68), Expect = 4.9, Method: Composition-based stats.
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 251 SETGGG------LEHLQKQMLSTILSEKLEVAGPNIPQFTK-ERVRRMKVLIVLDDVNKV 303
+E GGG LE Q+ + +SE + + P +PQ+ V LI+ D +
Sbjct: 101 TEAGGGQSAPDRLETRVIQVQQSPVSELIPLIRPLVPQYGHLAAVPSANALIISDRSANI 160
Query: 304 GQLEGLIGGLDQYGPGSRIVVTTRDKGVLE 333
++E +I LDQ G V+ R V++
Sbjct: 161 ARIEDVIRQLDQKGSHDYCVINLRYGWVMD 190
>pdb|3N9X|A Chain A, Crystal Structure Of Map Kinase From Plasmodium Berghei,
Pb000659.00.0
pdb|3N9X|B Chain B, Crystal Structure Of Map Kinase From Plasmodium Berghei,
Pb000659.00.0
Length = 432
Score = 30.0 bits (66), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 45/154 (29%), Positives = 69/154 (44%), Gaps = 16/154 (10%)
Query: 663 ERIYLSNCTNLVHVPASIQNFKYLKFPQISGKITRLYLSQSAIEEVPSSIECLTDLVELD 722
E +Y N VHVP + +K G +YL+ E +I+ + + E D
Sbjct: 12 ENLYFQGIKN-VHVPDNY----IIKHLIGRGSYGYVYLAYDKNTEKNVAIKKVNRMFE-D 65
Query: 723 LRDCKRLKRISTRFCKLKS--LVKL----CLDDCLNLERFPEILEEMEH-LKRIYLERTA 775
L DCKR+ R T +LKS +++L DD L + +LE + LK+++
Sbjct: 66 LIDCKRILREITILNRLKSDYIIRLYDLIIPDDLLKFDELYIVLEIADSDLKKLFKTPIF 125
Query: 776 ITE--LPSSFEN-LLGLEFLTVSGCSKLDKLPDN 806
+TE + + N LLG F+ SG D P N
Sbjct: 126 LTEEHIKTILYNLLLGENFIHESGIIHRDLKPAN 159
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,789,909
Number of Sequences: 62578
Number of extensions: 1461080
Number of successful extensions: 3844
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 3804
Number of HSP's gapped (non-prelim): 47
length of query: 1243
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1133
effective length of database: 8,089,757
effective search space: 9165694681
effective search space used: 9165694681
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: 57 (26.6 bits)