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= 036458
(445 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GND|A Chain A, Guanine Nucleotide Dissociation Inhibitor, Alpha-Isoform
Length = 447
Score = 540 bits (1390), Expect = e-154, Method: Compositional matrix adjust.
Identities = 250/433 (57%), Positives = 337/433 (77%), Gaps = 3/433 (0%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLN-LTQLWKRFKGDD 59
MDE+YDVIVLGTGL ECILSG++SV+G KVLHMDRN YYGGES+S+ L +L+KRF+ +
Sbjct: 1 MDEEYDVIVLGTGLTECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLE 60
Query: 60 KPPERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIYKVP 119
PPE +G +++NVD+IPKF+MANG LV++L++T+VT+YL+FK V+GSFVY GKIYKVP
Sbjct: 61 GPPETMGRGRDWNVDLIPKFLMANGQLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVP 120
Query: 120 ATDVEALKSPLMGLFEKRRARKFFIYVQEYEEDDPKSHEGLDLNKVTAREIISKYGLEDD 179
+T+ EAL S LMG+FEKRR RKF ++V ++E+DPK+ EG+D + R++ K+ L D
Sbjct: 121 STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQNTSMRDVYRKFDLGQD 180
Query: 180 TIDFIGHALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQAFA 239
IDF GHALAL+ D YL++P ++ + RIKLY+ESLAR+ G SPY+YPLYGLGELPQ FA
Sbjct: 181 VIDFTGHALALYRTDDYLDQPCLETINRIKLYSESLARY-GKSPYLYPLYGLGELPQGFA 239
Query: 240 RLSAVYGGTYMLNKPECKVEFDGDGKVIGVTSEGETAKCKKVVCDPSYLPDKVQKVGKVA 299
RLSA+YGGTYMLNKP + + +GKV+GV SEGE A+CK+++CDPSY+PD+V+K G+V
Sbjct: 240 RLSAIYGGTYMLNKPVDDIIME-NGKVVGVKSEGEVARCKQLICDPSYVPDRVRKAGQVI 298
Query: 300 RAICIMNHPIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFVSTEAE 359
R ICI++HPI +TND++SCQ+I+PQ Q+ RKSD+Y+ SYAHNVA G+YIA ST E
Sbjct: 299 RIICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVE 358
Query: 360 TDNPEVELKPGIDLLGPVDEIFFDTYDRFVPTNNHEADHCFISTSYDATTHFESTVQDVL 419
T +PE E++P ++LL P+D+ F D + P ++ F S SYDATTHFE+T D+
Sbjct: 359 TTDPEKEVEPALELLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIK 418
Query: 420 EMYTKITGKAVDL 432
++Y ++ G A D
Sbjct: 419 DIYKRMAGSAFDF 431
>pdb|1LV0|A Chain A, Crystal Structure Of The Rab Effector Guanine Nucleotide
Dissociation Inhibitor (Gdi) In Complex With A
Geranylgeranyl (Gg) Peptide
Length = 449
Score = 539 bits (1389), Expect = e-153, Method: Compositional matrix adjust.
Identities = 250/433 (57%), Positives = 337/433 (77%), Gaps = 3/433 (0%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLN-LTQLWKRFKGDD 59
MDE+YDVIVLGTGL ECILSG++SV+G KVLHMDRN YYGGES+S+ L +L+KRF+ +
Sbjct: 3 MDEEYDVIVLGTGLTECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLE 62
Query: 60 KPPERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIYKVP 119
PPE +G +++NVD+IPKF+MANG LV++L++T+VT+YL+FK V+GSFVY GKIYKVP
Sbjct: 63 GPPETMGRGRDWNVDLIPKFLMANGQLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVP 122
Query: 120 ATDVEALKSPLMGLFEKRRARKFFIYVQEYEEDDPKSHEGLDLNKVTAREIISKYGLEDD 179
+T+ EAL S LMG+FEKRR RKF ++V ++E+DPK+ EG+D + R++ K+ L D
Sbjct: 123 STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQNTSMRDVYRKFDLGQD 182
Query: 180 TIDFIGHALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQAFA 239
IDF GHALAL+ D YL++P ++ + RIKLY+ESLAR+ G SPY+YPLYGLGELPQ FA
Sbjct: 183 VIDFTGHALALYRTDDYLDQPCLETINRIKLYSESLARY-GKSPYLYPLYGLGELPQGFA 241
Query: 240 RLSAVYGGTYMLNKPECKVEFDGDGKVIGVTSEGETAKCKKVVCDPSYLPDKVQKVGKVA 299
RLSA+YGGTYMLNKP + + +GKV+GV SEGE A+CK+++CDPSY+PD+V+K G+V
Sbjct: 242 RLSAIYGGTYMLNKPVDDIIME-NGKVVGVKSEGEVARCKQLICDPSYVPDRVRKAGQVI 300
Query: 300 RAICIMNHPIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFVSTEAE 359
R ICI++HPI +TND++SCQ+I+PQ Q+ RKSD+Y+ SYAHNVA G+YIA ST E
Sbjct: 301 RIICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVE 360
Query: 360 TDNPEVELKPGIDLLGPVDEIFFDTYDRFVPTNNHEADHCFISTSYDATTHFESTVQDVL 419
T +PE E++P ++LL P+D+ F D + P ++ F S SYDATTHFE+T D+
Sbjct: 361 TTDPEKEVEPALELLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIK 420
Query: 420 EMYTKITGKAVDL 432
++Y ++ G A D
Sbjct: 421 DIYKRMAGSAFDF 433
>pdb|1D5T|A Chain A, Guanine Nucleotide Dissociation Inhibitor, Alpha-Isoform
Length = 433
Score = 538 bits (1386), Expect = e-153, Method: Compositional matrix adjust.
Identities = 250/433 (57%), Positives = 336/433 (77%), Gaps = 3/433 (0%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLN-LTQLWKRFKGDD 59
MDE+YDVIVLGTGL ECILSG++SV+G KVLHMDRN YYGGES+S+ L +L+KRF+ +
Sbjct: 3 MDEEYDVIVLGTGLTECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLE 62
Query: 60 KPPERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIYKVP 119
PPE +G +++NVD+IPKF+MANG LV++L++T+VT+YL+FK V+GSFVY GKIYKVP
Sbjct: 63 GPPETMGRGRDWNVDLIPKFLMANGQLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVP 122
Query: 120 ATDVEALKSPLMGLFEKRRARKFFIYVQEYEEDDPKSHEGLDLNKVTAREIISKYGLEDD 179
+T+ EAL S LMG+FEKRR RKF ++V ++E+DPK+ EG+D + R++ K+ L D
Sbjct: 123 STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQNTSMRDVYRKFDLGQD 182
Query: 180 TIDFIGHALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQAFA 239
IDF GHALAL+ D YL++P ++ + RIKLY+ESLAR+ G SPY+YPLYGLGELPQ FA
Sbjct: 183 VIDFTGHALALYRTDDYLDQPCLETINRIKLYSESLARY-GKSPYLYPLYGLGELPQGFA 241
Query: 240 RLSAVYGGTYMLNKPECKVEFDGDGKVIGVTSEGETAKCKKVVCDPSYLPDKVQKVGKVA 299
RLSA+YGGTYMLNKP + + +GKV+GV SEGE A+CK+++CDPSY+PD+V+K G+V
Sbjct: 242 RLSAIYGGTYMLNKPVDDIIME-NGKVVGVKSEGEVARCKQLICDPSYVPDRVRKAGQVI 300
Query: 300 RAICIMNHPIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFVSTEAE 359
R ICI++HPI +TND++SCQ+I+PQ Q+ RKSD+Y+ SYAHNVA G+YIA ST E
Sbjct: 301 RIICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVE 360
Query: 360 TDNPEVELKPGIDLLGPVDEIFFDTYDRFVPTNNHEADHCFISTSYDATTHFESTVQDVL 419
T +PE E++P + LL P+D+ F D + P ++ F S SYDATTHFE+T D+
Sbjct: 361 TTDPEKEVEPALGLLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIK 420
Query: 420 EMYTKITGKAVDL 432
++Y ++ G A D
Sbjct: 421 DIYKRMAGSAFDF 433
>pdb|3CPH|G Chain G, Crystal Structure Of Sec4 In Complex With Rab-Gdi
pdb|3CPH|H Chain H, Crystal Structure Of Sec4 In Complex With Rab-Gdi
pdb|3CPI|G Chain G, Crystal Structure Of Yeast Rab-Gdi
pdb|3CPI|H Chain H, Crystal Structure Of Yeast Rab-Gdi
pdb|3CPJ|G Chain G, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi
Length = 451
Score = 483 bits (1243), Expect = e-137, Method: Compositional matrix adjust.
Identities = 231/438 (52%), Positives = 321/438 (73%), Gaps = 7/438 (1%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFKGD-- 58
+D DYDVIVLGTG+ ECILSG+LSVDG KVLH+D+ +YGGE+ S+ L+QL+++FK +
Sbjct: 6 IDTDYDVIVLGTGITECILSGLLSVDGKKVLHIDKQDHYGGEAASVTLSQLYEKFKQNPI 65
Query: 59 --DKPPERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIY 116
++ + G +++NVD+IPKF+MANG L ILIHTDVT+Y++FK V GS+V+ +GKIY
Sbjct: 66 SKEERESKFGKDRDWNVDLIPKFLMANGELTNILIHTDVTRYVDFKQVSGSYVFKQGKIY 125
Query: 117 KVPATDVEALKSPLMGLFEKRRARKFFIYVQEYEEDDPKSHEGLDLNKVTAREIISKYGL 176
KVPA ++EA+ SPLMG+FEKRR +KF ++ Y+EDD +H+GLDL+K T E+ K+GL
Sbjct: 126 KVPANEIEAISSPLMGIFEKRRMKKFLEWISSYKEDDLSTHQGLDLDKNTMDEVYYKFGL 185
Query: 177 EDDTIDFIGHALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQ 236
+ T +FIGHA+AL ND YL++PA +RI LY +S+AR+ G SPY+YP+YGLGELPQ
Sbjct: 186 GNSTKEFIGHAMALWTNDDYLQQPARPSFERILLYCQSVARY-GKSPYLYPMYGLGELPQ 244
Query: 237 AFARLSAVYGGTYMLNKPECKVEFDGD-GKVIGVTSEGETAKCKKVVCDPSYLPDKVQKV 295
FARLSA+YGGTYML+ P +V + D GK GV ++ T K V+ DP+Y P+K +
Sbjct: 245 GFARLSAIYGGTYMLDTPIDEVLYKKDTGKFEGVKTKLGTFKAPLVIADPTYFPEKCKST 304
Query: 296 G-KVARAICIMNHPIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFV 354
G +V RAICI+NHP+P+T+++ S Q+I+PQ QLGRKSD+Y+ S AHNV G Y+A +
Sbjct: 305 GQRVIRAICILNHPVPNTSNADSLQIIIPQSQLGRKSDIYVAIVSDAHNVCSKGHYLAII 364
Query: 355 STEAETDNPEVELKPGIDLLGPVDEIFFDTYDRFVPTNNHEADHCFISTSYDATTHFEST 414
ST ETD P +EL+P LLGP++E F + F P + D+ ++S SYDA++HFES
Sbjct: 365 STIIETDKPHIELEPAFKLLGPIEEKFMGIAELFEPREDGSKDNIYLSRSYDASSHFESM 424
Query: 415 VQDVLEMYTKITGKAVDL 432
DV ++Y ++TG + L
Sbjct: 425 TDDVKDIYFRVTGHPLVL 442
>pdb|1UKV|G Chain G, Structure Of Rabgdp-Dissociation Inhibitor In Complex With
Prenylated Ypt1 Gtpase
pdb|2BCG|G Chain G, Structure Of Doubly Prenylated Ypt1:gdi Complex
Length = 453
Score = 483 bits (1242), Expect = e-136, Method: Compositional matrix adjust.
Identities = 231/438 (52%), Positives = 321/438 (73%), Gaps = 7/438 (1%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFKGD-- 58
+D DYDVIVLGTG+ ECILSG+LSVDG KVLH+D+ +YGGE+ S+ L+QL+++FK +
Sbjct: 8 IDTDYDVIVLGTGITECILSGLLSVDGKKVLHIDKQDHYGGEAASVTLSQLYEKFKQNPI 67
Query: 59 --DKPPERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIY 116
++ + G +++NVD+IPKF+MANG L ILIHTDVT+Y++FK V GS+V+ +GKIY
Sbjct: 68 SKEERESKFGKDRDWNVDLIPKFLMANGELTNILIHTDVTRYVDFKQVSGSYVFKQGKIY 127
Query: 117 KVPATDVEALKSPLMGLFEKRRARKFFIYVQEYEEDDPKSHEGLDLNKVTAREIISKYGL 176
KVPA ++EA+ SPLMG+FEKRR +KF ++ Y+EDD +H+GLDL+K T E+ K+GL
Sbjct: 128 KVPANEIEAISSPLMGIFEKRRMKKFLEWISSYKEDDLSTHQGLDLDKNTMDEVYYKFGL 187
Query: 177 EDDTIDFIGHALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQ 236
+ T +FIGHA+AL ND YL++PA +RI LY +S+AR+ G SPY+YP+YGLGELPQ
Sbjct: 188 GNSTKEFIGHAMALWTNDDYLQQPARPSFERILLYCQSVARY-GKSPYLYPMYGLGELPQ 246
Query: 237 AFARLSAVYGGTYMLNKPECKVEFDGD-GKVIGVTSEGETAKCKKVVCDPSYLPDKVQKV 295
FARLSA+YGGTYML+ P +V + D GK GV ++ T K V+ DP+Y P+K +
Sbjct: 247 GFARLSAIYGGTYMLDTPIDEVLYKKDTGKFEGVKTKLGTFKAPLVIADPTYFPEKCKST 306
Query: 296 G-KVARAICIMNHPIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFV 354
G +V RAICI+NHP+P+T+++ S Q+I+PQ QLGRKSD+Y+ S AHNV G Y+A +
Sbjct: 307 GQRVIRAICILNHPVPNTSNADSLQIIIPQSQLGRKSDIYVAIVSDAHNVCSKGHYLAII 366
Query: 355 STEAETDNPEVELKPGIDLLGPVDEIFFDTYDRFVPTNNHEADHCFISTSYDATTHFEST 414
ST ETD P +EL+P LLGP++E F + F P + D+ ++S SYDA++HFES
Sbjct: 367 STIIETDKPHIELEPAFKLLGPIEEKFMGIAELFEPREDGSKDNIYLSRSYDASSHFESM 426
Query: 415 VQDVLEMYTKITGKAVDL 432
DV ++Y ++TG + L
Sbjct: 427 TDDVKDIYFRVTGHPLVL 444
>pdb|3P1W|A Chain A, Crystal Structure Of Rab Gdi From Plasmodium Falciparum,
Pfl2060c
Length = 475
Score = 442 bits (1136), Expect = e-124, Method: Compositional matrix adjust.
Identities = 216/443 (48%), Positives = 308/443 (69%), Gaps = 14/443 (3%)
Query: 3 EDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFKGDDKPP 62
E YDVI+LGTGLKECILSG+LS G K+L +DRN YYGGE+ SLNLT L+ FK + P
Sbjct: 19 EHYDVIILGTGLKECILSGLLSHYGKKILVLDRNPYYGGETASLNLTNLYNTFKPKENIP 78
Query: 63 ERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGK-------- 114
+ G ++ +NVD+IPKF++ G LV+IL T VT YL + V+GS+VY K
Sbjct: 79 SKYGENRHWNVDLIPKFILVGGNLVKILKKTRVTNYLEWLVVEGSYVYQHQKKGFLTSEK 138
Query: 115 -IYKVPATDVEALKSPLMGLFEKRRARKFFIYVQEYEEDDPKSHEGLDLNKVTAREIISK 173
I+KVPATD+EAL SPL+ L EK R + F+ YV E++ + + + LD K+T EI
Sbjct: 139 FIHKVPATDMEALVSPLLSLMEKNRCKNFYQYVSEWDANKRNTWDNLDPYKLTMLEIYKH 198
Query: 174 YGLEDDTIDFIGHALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGE 233
+ L TIDF+GHA+AL++ND YL++PA ++RIKLY +S++ F G SP+IYPLYGLG
Sbjct: 199 FNLCQLTIDFLGHAVALYLNDDYLKQPAYLTLERIKLYMQSISAF-GKSPFIYPLYGLGG 257
Query: 234 LPQAFARLSAVYGGTYMLNKPECKVEFDGDGKVIGV-TSEGETAKCKKVVCDPSY---LP 289
+P+ F+R+ A+ GGT+MLNK FD D KV G+ +S+GE A C KV+CDPSY L
Sbjct: 258 IPEGFSRMCAINGGTFMLNKNVVDFVFDDDNKVCGIKSSDGEIAYCDKVICDPSYVMHLK 317
Query: 290 DKVQKVGKVARAICIMNHPIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQ 349
+K++K+G+V R ICI+++PIP+TN ++SCQ+I+PQ QL RKSD+Y+ S+ H V G+
Sbjct: 318 NKIKKIGQVIRCICILSNPIPETNQTNSCQIIIPQNQLNRKSDIYINLVSFQHGVTLKGK 377
Query: 350 YIAFVSTEAETDNPEVELKPGIDLLGPVDEIFFDTYDRFVPTNNHEADHCFISTSYDATT 409
YIA VS ET+NP E++ ++LLG ++E F D +V T+ AD+ F+++SYDAT+
Sbjct: 378 YIAIVSATVETNNPIKEIEKPLELLGTIEEKFVKISDLYVSTSKKPADNIFVTSSYDATS 437
Query: 410 HFESTVQDVLEMYTKITGKAVDL 432
HFE+ D+L+++ + G+ ++
Sbjct: 438 HFETATNDLLQIWENLWGQKLNF 460
>pdb|1LTX|R Chain R, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 650
Score = 115 bits (287), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 77/280 (27%), Positives = 142/280 (50%), Gaps = 19/280 (6%)
Query: 69 KEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIYKVPATDVEALKS 128
+ +N+D++ K + + G L+ +LI ++V++Y FK + + +G + +VP + + S
Sbjct: 222 RRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREGTVEQVPCSRADVFNS 281
Query: 129 PLMGLFEKRRARKFFIYVQEYEE--DDPKSHEGLDLNKVTAREIISKYGLEDDTIDFIGH 186
+ + EKR KF + EYEE D+ +++EG T E + L + F+ H
Sbjct: 282 KQLTMVEKRMLMKFLTFCVEYEEHPDEYRAYEG-----TTFSEYLKTQKLTPNLQYFVLH 336
Query: 187 ALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQAFARLSAVYG 246
++A+ S +D +K K + + L R+ G +P+++PLYG GELPQ F R+ AV+G
Sbjct: 337 SIAM---TSETTSCTVDGLKATKKFLQCLGRY-GNTPFLFPLYGQGELPQCFCRMCAVFG 392
Query: 247 GTYMLNKP-ECKVEFDGDGKVIGVTSE-GETAKCKKVVCDPSYLPD----KVQKVGKVAR 300
G Y L +C V K V + G+ K + + SYL + +VQ +++R
Sbjct: 393 GIYCLRHSVQCLVVDKESRKCKAVIDQFGQRIISKHFIIEDSYLSENTCSRVQ-YRQISR 451
Query: 301 AICIMNHPIPDTNDSHSCQVI-LPQKQLGRKSDMYLFCCS 339
A+ I + + T+ ++ +P ++ G + + CS
Sbjct: 452 AVLITDGSVLKTDADQQVSILTVPAEEPGSFAVRVIELCS 491
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 34/56 (60%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFK 56
+ D+DVIV+GTGL E I++ S G +VLH+D +YYGG S + + L K
Sbjct: 5 LPSDFDVIVIGTGLPESIIAAACSRSGQRVLHVDSRSYYGGNWASFSFSGLLSWLK 60
>pdb|1VG0|A Chain A, The Crystal Structures Of The Rep-1 Protein In Complex
With Monoprenylated Rab7 Protein
pdb|1VG9|A Chain A, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|C Chain C, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|E Chain E, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
pdb|1VG9|G Chain G, The Crystal Structures Of The Rep-1 Protein In Complex
With C-Terminally Truncated Rab7 Protein
Length = 650
Score = 115 bits (287), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 77/280 (27%), Positives = 142/280 (50%), Gaps = 19/280 (6%)
Query: 69 KEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKGKIYKVPATDVEALKS 128
+ +N+D++ K + + G L+ +LI ++V++Y FK + + +G + +VP + + S
Sbjct: 222 RRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREGTVEQVPCSRADVFNS 281
Query: 129 PLMGLFEKRRARKFFIYVQEYEE--DDPKSHEGLDLNKVTAREIISKYGLEDDTIDFIGH 186
+ + EKR KF + EYEE D+ +++EG T E + L + F+ H
Sbjct: 282 KQLTMVEKRMLMKFLTFCVEYEEHPDEYRAYEG-----TTFSEYLKTQKLTPNLQYFVLH 336
Query: 187 ALALHINDSYLEEPAMDFVKRIKLYAESLARFQGGSPYIYPLYGLGELPQAFARLSAVYG 246
++A+ S +D +K K + + L R+ G +P+++PLYG GELPQ F R+ AV+G
Sbjct: 337 SIAM---TSETTSCTVDGLKATKKFLQCLGRY-GNTPFLFPLYGQGELPQCFCRMCAVFG 392
Query: 247 GTYMLNKP-ECKVEFDGDGKVIGVTSE-GETAKCKKVVCDPSYLPD----KVQKVGKVAR 300
G Y L +C V K V + G+ K + + SYL + +VQ +++R
Sbjct: 393 GIYCLRHSVQCLVVDKESRKCKAVIDQFGQRIISKHFIIEDSYLSENTCSRVQ-YRQISR 451
Query: 301 AICIMNHPIPDTNDSHSCQVI-LPQKQLGRKSDMYLFCCS 339
A+ I + + T+ ++ +P ++ G + + CS
Sbjct: 452 AVLITDGSVLRTDADQQVSILTVPAEEPGSFAVRVIELCS 491
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 34/56 (60%)
Query: 1 MDEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFK 56
+ D+DVIV+GTGL E I++ S G +VLH+D +YYGG S + + L K
Sbjct: 5 LPSDFDVIVIGTGLPESIIAAACSRSGQRVLHVDSRSYYGGNWASFSFSGLLSWLK 60
>pdb|3LSO|B Chain B, Crystal Structure Of Putative Membrane Anchored Protein
From Corynebacterium Diphtheriae
Length = 489
Score = 34.7 bits (78), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 37/121 (30%), Positives = 58/121 (47%), Gaps = 15/121 (12%)
Query: 252 NKPECKVEFD-GDGKVIGVTSEGETAKCKKVVCDPSYLPDKVQKV--GKVARAICIMNH- 307
+KP V+ D DG I + E+A K+ V + +P+K+ + GKV +NH
Sbjct: 181 DKPFATVKVDPADGLTI---TAPESASIKQDVQITATVPEKLNEKXDGKVQ---FFVNHI 234
Query: 308 ----PIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFVSTEAETDNP 363
P+P T D+ + I+ G K+ F + +N AP+G+ I V TE +T P
Sbjct: 235 AAGDPVPVTEDNKASTSIIFDTS-GSKTITARFIDAEGYNPAPDGETIIPVVTELDTKKP 293
Query: 364 E 364
E
Sbjct: 294 E 294
>pdb|3LSO|A Chain A, Crystal Structure Of Putative Membrane Anchored Protein
From Corynebacterium Diphtheriae
Length = 489
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 37/121 (30%), Positives = 58/121 (47%), Gaps = 15/121 (12%)
Query: 252 NKPECKVEFD-GDGKVIGVTSEGETAKCKKVVCDPSYLPDKVQKV--GKVARAICIMNH- 307
+KP V+ D DG I + E+A K+ V + +P+K+ + GKV +NH
Sbjct: 181 DKPFATVKVDPADGLTI---TAPESASIKQDVQITATVPEKLNEKXDGKVQ---FFVNHI 234
Query: 308 ----PIPDTNDSHSCQVILPQKQLGRKSDMYLFCCSYAHNVAPNGQYIAFVSTEAETDNP 363
P+P T D+ + I+ G K+ F + +N AP+G+ I V TE +T P
Sbjct: 235 AAGDPVPVTEDNXASTSIIFDTS-GSKTITARFIDAEGYNPAPDGETIIPVVTELDTKKP 293
Query: 364 E 364
E
Sbjct: 294 E 294
>pdb|2VVL|G Chain G, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger
Length = 495
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 24/112 (21%)
Query: 2 DEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFKGDDKP 61
D +DVIV+G G + L+V G K L ++ GG S S N+ D P
Sbjct: 37 DGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLEARDRIGGRSWSSNI---------DGYP 87
Query: 62 PERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKG 113
E G+ ++ + + ++T+Y A+ SF +++G
Sbjct: 88 YEMGGTWVHWHQSHVWR---------------EITRYKMHNALSPSFNFSRG 124
>pdb|2VVM|A Chain A, The Structure Of Mao-N-D5, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVM|B Chain B, The Structure Of Mao-N-D5, A Variant Of Monoamine Oxidase
From Aspergillus Niger
Length = 495
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 24/112 (21%)
Query: 2 DEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFKGDDKP 61
D +DVIV+G G + L+V G K L ++ GG S S N+ D P
Sbjct: 37 DGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLEARDRIGGRSWSSNI---------DGYP 87
Query: 62 PERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKG 113
E G+ ++ + + ++T+Y A+ SF +++G
Sbjct: 88 YEMGGTWVHWHQSHVWR---------------EITRYKMHNALSPSFNFSRG 124
>pdb|2VVL|A Chain A, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVL|B Chain B, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVL|C Chain C, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVL|D Chain D, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVL|E Chain E, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVL|F Chain F, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger.
pdb|2VVL|H Chain H, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger
Length = 495
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 24/112 (21%)
Query: 2 DEDYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLTQLWKRFKGDDKP 61
D +DVIV+G G + L+V G K L ++ GG S S N+ D P
Sbjct: 37 DGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLEARDRIGGRSWSSNI---------DGYP 87
Query: 62 PERLGSSKEYNVDMIPKFMMANGGLVRILIHTDVTKYLNFKAVDGSFVYNKG 113
E G+ ++ + + ++T+Y A+ SF +++G
Sbjct: 88 YEMGGTWVHWHQSHVWR---------------EITRYKMHNALSPSFNFSRG 124
>pdb|3HDQ|A Chain A, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|B Chain B, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|C Chain C, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|D Chain D, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|E Chain E, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|F Chain F, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|G Chain G, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|H Chain H, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|I Chain I, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDQ|J Chain J, Crystal Structure Of Udp-Galactopyranose Mutase
(Oxidized Form) In Complex With Substrate
pdb|3HDY|A Chain A, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|B Chain B, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|C Chain C, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|D Chain D, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|E Chain E, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|F Chain F, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|G Chain G, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|H Chain H, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|I Chain I, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HDY|J Chain J, Crystal Structure Of Udp-Galactopyranose Mutase (Reduced
Form) In Complex With Substrate
pdb|3HE3|A Chain A, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|B Chain B, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|C Chain C, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|D Chain D, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|E Chain E, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|F Chain F, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|G Chain G, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|H Chain H, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|I Chain I, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3HE3|J Chain J, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Udp
pdb|3MJ4|A Chain A, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|B Chain B, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|C Chain C, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|D Chain D, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|E Chain E, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|F Chain F, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|G Chain G, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|H Chain H, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|I Chain I, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
pdb|3MJ4|J Chain J, Crystal Structure Of Udp-Galactopyranose Mutase In
Complex With Phosphonate Analog Of Udp-Galactopyranose
Length = 397
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 5 YDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGES 43
+D +++G G +L+ L+ G +VL +DR + GG +
Sbjct: 30 FDYLIVGAGFAGSVLAERLASSGQRVLIVDRRPHIGGNA 68
>pdb|2QA2|A Chain A, Crystal Structure Of Cabe, An Aromatic Hydroxylase From
Angucycline Biosynthesis, Determined To 2.7 A
Resolution
Length = 499
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 4 DYDVIVLGTGLKECILSGVLSVDGLKVLHMDRNAYYGGESTSLNLT 49
D VIV+G G +L+G L + G+ V+ +++ GES L T
Sbjct: 12 DASVIVVGAGPAGLMLAGELRLGGVDVMVLEQLPQRTGESRGLGFT 57
>pdb|4IGC|X Chain X, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|Y Chain Y, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 613
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 290 DKVQKVGKVARAICIMNHPIPDTNDSH 316
DK++KV K+A+ M PI D DSH
Sbjct: 492 DKIRKVLKIAKEPISMETPIGDDEDSH 518
>pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
Length = 613
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 290 DKVQKVGKVARAICIMNHPIPDTNDSH 316
DK++KV K+A+ M PI D DSH
Sbjct: 492 DKIRKVLKIAKEPISMETPIGDDEDSH 518
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
0.318 0.137 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,157,280
Number of Sequences: 62578
Number of extensions: 642524
Number of successful extensions: 1496
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1454
Number of HSP's gapped (non-prelim): 28
length of query: 445
length of database: 14,973,337
effective HSP length: 102
effective length of query: 343
effective length of database: 8,590,381
effective search space: 2946500683
effective search space used: 2946500683
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)