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= 013352
(444 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 = 539 bits (1389), Expect = e-153, Method: Compositional matrix adjust.
Identities = 255/428 (59%), Positives = 336/428 (78%), Gaps = 3/428 (0%)
Query: 1 MDEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLN-LIQLWKRFRGNE 59
MDEEYDVIVLGTGL ECILSG++SV+G KVLHMDRN YYGGESSS+ L +L+KRF+ E
Sbjct: 1 MDEEYDVIVLGTGLTECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLE 60
Query: 60 QPPAHLGSSRDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVHKVP 119
PP +G RD+NVD+IPKF++ANG LV++L++T+VT+YL FK V+GSFVY GK++KVP
Sbjct: 61 GPPETMGRGRDWNVDLIPKFLMANGQLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVP 120
Query: 120 ATDMEALKSPLMGIFEKRRARKFFIYVQDYDENDPKTHEGMDLTRVTTRELIAKYGLDDN 179
+T+ EAL S LMG+FEKRR RKF ++V ++DENDPKT EG+D + R++ K+ L +
Sbjct: 121 STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQNTSMRDVYRKFDLGQD 180
Query: 180 TIDFIGHALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQAFA 239
IDF GHALAL+R D YL++P L+T+ R+KLY+ES+AR+ G SPY+YPLYGLGELPQ FA
Sbjct: 181 VIDFTGHALALYRTDDYLDQPCLETINRIKLYSESLARY-GKSPYLYPLYGLGELPQGFA 239
Query: 240 RLSAVYGGTYMLNKPECKVEFDEEGKVVGVTSEGETAKCKKVVCDPSYLPNKVRKVGRVA 299
RLSA+YGGTYMLNKP + E GKVVGV SEGE A+CK+++CDPSY+P++VRK G+V
Sbjct: 240 RLSAIYGGTYMLNKPVDDIIM-ENGKVVGVKSEGEVARCKQLICDPSYVPDRVRKAGQVI 298
Query: 300 RAIAIMSHPIPNTNDSHSVQVILPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFVSTEAE 359
R I I+SHPI NTND++S Q+I+PQ Q+ R+SD+Y+ SY+HNVA +GK+IA ST E
Sbjct: 299 RIICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVE 358
Query: 360 TDHPQTELKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFISTSYDATTHFESTVTDVL 419
T P+ E++P ++LL P+D+ F I D YEP+++ S F S SYDATTHFE+T D+
Sbjct: 359 TTDPEKEVEPALELLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIK 418
Query: 420 NMYTMITG 427
++Y + G
Sbjct: 419 DIYKRMAG 426
>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 (1388), Expect = e-153, Method: Compositional matrix adjust.
Identities = 255/428 (59%), Positives = 336/428 (78%), Gaps = 3/428 (0%)
Query: 1 MDEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLN-LIQLWKRFRGNE 59
MDEEYDVIVLGTGL ECILSG++SV+G KVLHMDRN YYGGESSS+ L +L+KRF+ E
Sbjct: 3 MDEEYDVIVLGTGLTECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLE 62
Query: 60 QPPAHLGSSRDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVHKVP 119
PP +G RD+NVD+IPKF++ANG LV++L++T+VT+YL FK V+GSFVY GK++KVP
Sbjct: 63 GPPETMGRGRDWNVDLIPKFLMANGQLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVP 122
Query: 120 ATDMEALKSPLMGIFEKRRARKFFIYVQDYDENDPKTHEGMDLTRVTTRELIAKYGLDDN 179
+T+ EAL S LMG+FEKRR RKF ++V ++DENDPKT EG+D + R++ K+ L +
Sbjct: 123 STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQNTSMRDVYRKFDLGQD 182
Query: 180 TIDFIGHALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQAFA 239
IDF GHALAL+R D YL++P L+T+ R+KLY+ES+AR+ G SPY+YPLYGLGELPQ FA
Sbjct: 183 VIDFTGHALALYRTDDYLDQPCLETINRIKLYSESLARY-GKSPYLYPLYGLGELPQGFA 241
Query: 240 RLSAVYGGTYMLNKPECKVEFDEEGKVVGVTSEGETAKCKKVVCDPSYLPNKVRKVGRVA 299
RLSA+YGGTYMLNKP + E GKVVGV SEGE A+CK+++CDPSY+P++VRK G+V
Sbjct: 242 RLSAIYGGTYMLNKPVDDIIM-ENGKVVGVKSEGEVARCKQLICDPSYVPDRVRKAGQVI 300
Query: 300 RAIAIMSHPIPNTNDSHSVQVILPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFVSTEAE 359
R I I+SHPI NTND++S Q+I+PQ Q+ R+SD+Y+ SY+HNVA +GK+IA ST E
Sbjct: 301 RIICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVE 360
Query: 360 TDHPQTELKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFISTSYDATTHFESTVTDVL 419
T P+ E++P ++LL P+D+ F I D YEP+++ S F S SYDATTHFE+T D+
Sbjct: 361 TTDPEKEVEPALELLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIK 420
Query: 420 NMYTMITG 427
++Y + G
Sbjct: 421 DIYKRMAG 428
>pdb|1D5T|A Chain A, Guanine Nucleotide Dissociation Inhibitor, Alpha-Isoform
Length = 433
Score = 537 bits (1383), Expect = e-153, Method: Compositional matrix adjust.
Identities = 255/428 (59%), Positives = 335/428 (78%), Gaps = 3/428 (0%)
Query: 1 MDEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLN-LIQLWKRFRGNE 59
MDEEYDVIVLGTGL ECILSG++SV+G KVLHMDRN YYGGESSS+ L +L+KRF+ E
Sbjct: 3 MDEEYDVIVLGTGLTECILSGIMSVNGKKVLHMDRNPYYGGESSSITPLEELYKRFQLLE 62
Query: 60 QPPAHLGSSRDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVHKVP 119
PP +G RD+NVD+IPKF++ANG LV++L++T+VT+YL FK V+GSFVY GK++KVP
Sbjct: 63 GPPETMGRGRDWNVDLIPKFLMANGQLVKMLLYTEVTRYLDFKVVEGSFVYKGGKIYKVP 122
Query: 120 ATDMEALKSPLMGIFEKRRARKFFIYVQDYDENDPKTHEGMDLTRVTTRELIAKYGLDDN 179
+T+ EAL S LMG+FEKRR RKF ++V ++DENDPKT EG+D + R++ K+ L +
Sbjct: 123 STETEALASNLMGMFEKRRFRKFLVFVANFDENDPKTFEGVDPQNTSMRDVYRKFDLGQD 182
Query: 180 TIDFIGHALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQAFA 239
IDF GHALAL+R D YL++P L+T+ R+KLY+ES+AR+ G SPY+YPLYGLGELPQ FA
Sbjct: 183 VIDFTGHALALYRTDDYLDQPCLETINRIKLYSESLARY-GKSPYLYPLYGLGELPQGFA 241
Query: 240 RLSAVYGGTYMLNKPECKVEFDEEGKVVGVTSEGETAKCKKVVCDPSYLPNKVRKVGRVA 299
RLSA+YGGTYMLNKP + E GKVVGV SEGE A+CK+++CDPSY+P++VRK G+V
Sbjct: 242 RLSAIYGGTYMLNKPVDDIIM-ENGKVVGVKSEGEVARCKQLICDPSYVPDRVRKAGQVI 300
Query: 300 RAIAIMSHPIPNTNDSHSVQVILPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFVSTEAE 359
R I I+SHPI NTND++S Q+I+PQ Q+ R+SD+Y+ SY+HNVA +GK+IA ST E
Sbjct: 301 RIICILSHPIKNTNDANSCQIIIPQNQVNRKSDIYVCMISYAHNVAAQGKYIAIASTTVE 360
Query: 360 TDHPQTELKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFISTSYDATTHFESTVTDVL 419
T P+ E++P + LL P+D+ F I D YEP+++ S F S SYDATTHFE+T D+
Sbjct: 361 TTDPEKEVEPALGLLEPIDQKFVAISDLYEPIDDGSESQVFCSCSYDATTHFETTCNDIK 420
Query: 420 NMYTMITG 427
++Y + G
Sbjct: 421 DIYKRMAG 428
>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 = 475 bits (1222), Expect = e-134, Method: Compositional matrix adjust.
Identities = 227/433 (52%), Positives = 320/433 (73%), Gaps = 7/433 (1%)
Query: 1 MDEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLNLIQLWKRFRGN-- 58
+D +YDVIVLGTG+ ECILSGLLSVDG KVLH+D+ D+YGGE++S+ L QL+++F+ N
Sbjct: 6 IDTDYDVIVLGTGITECILSGLLSVDGKKVLHIDKQDHYGGEAASVTLSQLYEKFKQNPI 65
Query: 59 --EQPPAHLGSSRDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVH 116
E+ + G RD+NVD+IPKF++ANG L +LIHTDVT+Y+ FK V GS+V+ +GK++
Sbjct: 66 SKEERESKFGKDRDWNVDLIPKFLMANGELTNILIHTDVTRYVDFKQVSGSYVFKQGKIY 125
Query: 117 KVPATDMEALKSPLMGIFEKRRARKFFIYVQDYDENDPKTHEGMDLTRVTTRELIAKYGL 176
KVPA ++EA+ SPLMGIFEKRR +KF ++ Y E+D TH+G+DL + T E+ K+GL
Sbjct: 126 KVPANEIEAISSPLMGIFEKRRMKKFLEWISSYKEDDLSTHQGLDLDKNTMDEVYYKFGL 185
Query: 177 DDNTIDFIGHALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQ 236
++T +FIGHA+AL +D YL +PA + +R+ LY +S+AR+ G SPY+YP+YGLGELPQ
Sbjct: 186 GNSTKEFIGHAMALWTNDDYLQQPARPSFERILLYCQSVARY-GKSPYLYPMYGLGELPQ 244
Query: 237 AFARLSAVYGGTYMLNKPECKVEFDEE-GKVVGVTSEGETAKCKKVVCDPSYLPNKVRKV 295
FARLSA+YGGTYML+ P +V + ++ GK GV ++ T K V+ DP+Y P K +
Sbjct: 245 GFARLSAIYGGTYMLDTPIDEVLYKKDTGKFEGVKTKLGTFKAPLVIADPTYFPEKCKST 304
Query: 296 G-RVARAIAIMSHPIPNTNDSHSVQVILPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFV 354
G RV RAI I++HP+PNT+++ S+Q+I+PQ QLGR+SD+Y+ S +HNV KG ++A +
Sbjct: 305 GQRVIRAICILNHPVPNTSNADSLQIIIPQSQLGRKSDIYVAIVSDAHNVCSKGHYLAII 364
Query: 355 STEAETDHPQTELKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFISTSYDATTHFEST 414
ST ETD P EL+P LLGP++E F I + +EP + S DN ++S SYDA++HFES
Sbjct: 365 STIIETDKPHIELEPAFKLLGPIEEKFMGIAELFEPREDGSKDNIYLSRSYDASSHFESM 424
Query: 415 VTDVLNMYTMITG 427
DV ++Y +TG
Sbjct: 425 TDDVKDIYFRVTG 437
>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 = 474 bits (1220), Expect = e-134, Method: Compositional matrix adjust.
Identities = 227/433 (52%), Positives = 320/433 (73%), Gaps = 7/433 (1%)
Query: 1 MDEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLNLIQLWKRFRGN-- 58
+D +YDVIVLGTG+ ECILSGLLSVDG KVLH+D+ D+YGGE++S+ L QL+++F+ N
Sbjct: 8 IDTDYDVIVLGTGITECILSGLLSVDGKKVLHIDKQDHYGGEAASVTLSQLYEKFKQNPI 67
Query: 59 --EQPPAHLGSSRDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVH 116
E+ + G RD+NVD+IPKF++ANG L +LIHTDVT+Y+ FK V GS+V+ +GK++
Sbjct: 68 SKEERESKFGKDRDWNVDLIPKFLMANGELTNILIHTDVTRYVDFKQVSGSYVFKQGKIY 127
Query: 117 KVPATDMEALKSPLMGIFEKRRARKFFIYVQDYDENDPKTHEGMDLTRVTTRELIAKYGL 176
KVPA ++EA+ SPLMGIFEKRR +KF ++ Y E+D TH+G+DL + T E+ K+GL
Sbjct: 128 KVPANEIEAISSPLMGIFEKRRMKKFLEWISSYKEDDLSTHQGLDLDKNTMDEVYYKFGL 187
Query: 177 DDNTIDFIGHALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQ 236
++T +FIGHA+AL +D YL +PA + +R+ LY +S+AR+ G SPY+YP+YGLGELPQ
Sbjct: 188 GNSTKEFIGHAMALWTNDDYLQQPARPSFERILLYCQSVARY-GKSPYLYPMYGLGELPQ 246
Query: 237 AFARLSAVYGGTYMLNKPECKVEFDEE-GKVVGVTSEGETAKCKKVVCDPSYLPNKVRKV 295
FARLSA+YGGTYML+ P +V + ++ GK GV ++ T K V+ DP+Y P K +
Sbjct: 247 GFARLSAIYGGTYMLDTPIDEVLYKKDTGKFEGVKTKLGTFKAPLVIADPTYFPEKCKST 306
Query: 296 G-RVARAIAIMSHPIPNTNDSHSVQVILPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFV 354
G RV RAI I++HP+PNT+++ S+Q+I+PQ QLGR+SD+Y+ S +HNV KG ++A +
Sbjct: 307 GQRVIRAICILNHPVPNTSNADSLQIIIPQSQLGRKSDIYVAIVSDAHNVCSKGHYLAII 366
Query: 355 STEAETDHPQTELKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFISTSYDATTHFEST 414
ST ETD P EL+P LLGP++E F I + +EP + S DN ++S SYDA++HFES
Sbjct: 367 STIIETDKPHIELEPAFKLLGPIEEKFMGIAELFEPREDGSKDNIYLSRSYDASSHFESM 426
Query: 415 VTDVLNMYTMITG 427
DV ++Y +TG
Sbjct: 427 TDDVKDIYFRVTG 439
>pdb|3P1W|A Chain A, Crystal Structure Of Rab Gdi From Plasmodium Falciparum,
Pfl2060c
Length = 475
Score = 435 bits (1119), Expect = e-122, Method: Compositional matrix adjust.
Identities = 214/439 (48%), Positives = 302/439 (68%), Gaps = 14/439 (3%)
Query: 3 EEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLNLIQLWKRFRGNEQPP 62
E YDVI+LGTGLKECILSGLLS G K+L +DRN YYGGE++SLNL L+ F+ E P
Sbjct: 19 EHYDVIILGTGLKECILSGLLSHYGKKILVLDRNPYYGGETASLNLTNLYNTFKPKENIP 78
Query: 63 AHLGSSRDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGK-------- 114
+ G +R +NVD+IPKFI+ G LV++L T VT YL + V+GS+VY K
Sbjct: 79 SKYGENRHWNVDLIPKFILVGGNLVKILKKTRVTNYLEWLVVEGSYVYQHQKKGFLTSEK 138
Query: 115 -VHKVPATDMEALKSPLMGIFEKRRARKFFIYVQDYDENDPKTHEGMDLTRVTTRELIAK 173
+HKVPATDMEAL SPL+ + EK R + F+ YV ++D N T + +D ++T E+
Sbjct: 139 FIHKVPATDMEALVSPLLSLMEKNRCKNFYQYVSEWDANKRNTWDNLDPYKLTMLEIYKH 198
Query: 174 YGLDDNTIDFIGHALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGE 233
+ L TIDF+GHA+AL+ +D YL +PA T++R+KLY +SI+ F G SP+IYPLYGLG
Sbjct: 199 FNLCQLTIDFLGHAVALYLNDDYLKQPAYLTLERIKLYMQSISAF-GKSPFIYPLYGLGG 257
Query: 234 LPQAFARLSAVYGGTYMLNKPECKVEFDEEGKVVGV-TSEGETAKCKKVVCDPSY---LP 289
+P+ F+R+ A+ GGT+MLNK FD++ KV G+ +S+GE A C KV+CDPSY L
Sbjct: 258 IPEGFSRMCAINGGTFMLNKNVVDFVFDDDNKVCGIKSSDGEIAYCDKVICDPSYVMHLK 317
Query: 290 NKVRKVGRVARAIAIMSHPIPNTNDSHSVQVILPQKQLGRRSDMYLFCCSYSHNVAPKGK 349
NK++K+G+V R I I+S+PIP TN ++S Q+I+PQ QL R+SD+Y+ S+ H V KGK
Sbjct: 318 NKIKKIGQVIRCICILSNPIPETNQTNSCQIIIPQNQLNRKSDIYINLVSFQHGVTLKGK 377
Query: 350 FIAFVSTEAETDHPQTELKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFISTSYDATT 409
+IA VS ET++P E++ ++LLG ++E F I D Y ++ DN F+++SYDAT+
Sbjct: 378 YIAIVSATVETNNPIKEIEKPLELLGTIEEKFVKISDLYVSTSKKPADNIFVTSSYDATS 437
Query: 410 HFESTVTDVLNMYTMITGK 428
HFE+ D+L ++ + G+
Sbjct: 438 HFETATNDLLQIWENLWGQ 456
>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 = 118 bits (296), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 80/295 (27%), Positives = 148/295 (50%), Gaps = 18/295 (6%)
Query: 69 RDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVHKVPATDMEALKS 128
R +N+D++ K + + G L+ +LI ++V++Y FK + + +G V +VP + + S
Sbjct: 222 RRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREGTVEQVPCSRADVFNS 281
Query: 129 PLMGIFEKRRARKFFIYVQDYDE--NDPKTHEGMDLTRVTTRELIAKYGLDDNTIDFIGH 186
+ + EKR KF + +Y+E ++ + +EG T E + L N F+ H
Sbjct: 282 KQLTMVEKRMLMKFLTFCVEYEEHPDEYRAYEG-----TTFSEYLKTQKLTPNLQYFVLH 336
Query: 187 ALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQAFARLSAVYG 246
++A+ + +D +K K + + + R+ G +P+++PLYG GELPQ F R+ AV+G
Sbjct: 337 SIAMTSETTSC---TVDGLKATKKFLQCLGRY-GNTPFLFPLYGQGELPQCFCRMCAVFG 392
Query: 247 GTYMLNKP-ECKVEFDEEGKVVGVTSE-GETAKCKKVVCDPSYLP-NKVRKVG--RVARA 301
G Y L +C V E K V + G+ K + + SYL N +V +++RA
Sbjct: 393 GIYCLRHSVQCLVVDKESRKCKAVIDQFGQRIISKHFIIEDSYLSENTCSRVQYRQISRA 452
Query: 302 IAIMSHPIPNTNDSHSVQVI-LPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFVS 355
+ I + T+ V ++ +P ++ G + + CS S KG ++ ++
Sbjct: 453 VLITDGSVLRTDADQQVSILTVPAEEPGSFAVRVIELCS-STMTCMKGTYLVHLT 506
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 36/58 (62%), Gaps = 3/58 (5%)
Query: 4 EYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLN---LIQLWKRFRGN 58
++DVIV+GTGL E I++ S G +VLH+D YYGG +S + L+ K ++ N
Sbjct: 8 DFDVIVIGTGLPESIIAAACSRSGQRVLHVDSRSYYGGNWASFSFSGLLSWLKEYQEN 65
>pdb|1LTX|R Chain R, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 650
Score = 118 bits (296), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 80/295 (27%), Positives = 148/295 (50%), Gaps = 18/295 (6%)
Query: 69 RDYNVDMIPKFIIANGALVRVLIHTDVTKYLYFKAVDGSFVYNKGKVHKVPATDMEALKS 128
R +N+D++ K + + G L+ +LI ++V++Y FK + + +G V +VP + + S
Sbjct: 222 RRFNIDLVSKLLYSRGLLIDLLIKSNVSRYAEFKNITRILAFREGTVEQVPCSRADVFNS 281
Query: 129 PLMGIFEKRRARKFFIYVQDYDE--NDPKTHEGMDLTRVTTRELIAKYGLDDNTIDFIGH 186
+ + EKR KF + +Y+E ++ + +EG T E + L N F+ H
Sbjct: 282 KQLTMVEKRMLMKFLTFCVEYEEHPDEYRAYEG-----TTFSEYLKTQKLTPNLQYFVLH 336
Query: 187 ALALHRDDRYLNEPALDTVKRMKLYAESIARFQGGSPYIYPLYGLGELPQAFARLSAVYG 246
++A+ + +D +K K + + + R+ G +P+++PLYG GELPQ F R+ AV+G
Sbjct: 337 SIAMTSETTSC---TVDGLKATKKFLQCLGRY-GNTPFLFPLYGQGELPQCFCRMCAVFG 392
Query: 247 GTYMLNKP-ECKVEFDEEGKVVGVTSE-GETAKCKKVVCDPSYLP-NKVRKVG--RVARA 301
G Y L +C V E K V + G+ K + + SYL N +V +++RA
Sbjct: 393 GIYCLRHSVQCLVVDKESRKCKAVIDQFGQRIISKHFIIEDSYLSENTCSRVQYRQISRA 452
Query: 302 IAIMSHPIPNTNDSHSVQVI-LPQKQLGRRSDMYLFCCSYSHNVAPKGKFIAFVS 355
+ I + T+ V ++ +P ++ G + + CS S KG ++ ++
Sbjct: 453 VLITDGSVLKTDADQQVSILTVPAEEPGSFAVRVIELCS-STMTCMKGTYLVHLT 506
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/58 (41%), Positives = 36/58 (62%), Gaps = 3/58 (5%)
Query: 4 EYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLN---LIQLWKRFRGN 58
++DVIV+GTGL E I++ S G +VLH+D YYGG +S + L+ K ++ N
Sbjct: 8 DFDVIVIGTGLPESIIAAACSRSGQRVLHVDSRSYYGGNWASFSFSGLLSWLKEYQEN 65
>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 = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 2 DEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLNL 48
D +DVIV+G G + L+V G K L ++ D GG S S N+
Sbjct: 37 DGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLEARDRIGGRSWSSNI 83
>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 = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 2 DEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLNL 48
D +DVIV+G G + L+V G K L ++ D GG S S N+
Sbjct: 37 DGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLEARDRIGGRSWSSNI 83
>pdb|2VVL|G Chain G, The Structure Of Mao-N-D3, A Variant Of Monoamine
Oxidase From Aspergillus Niger
Length = 495
Score = 32.7 bits (73), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%)
Query: 2 DEEYDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSLNL 48
D +DVIV+G G + L+V G K L ++ D GG S S N+
Sbjct: 37 DGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLEARDRIGGRSWSSNI 83
>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 = 1.6, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 23/39 (58%)
Query: 5 YDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGES 43
+D +++G G +L+ L+ G +VL +DR + GG +
Sbjct: 30 FDYLIVGAGFAGSVLAERLASSGQRVLIVDRRPHIGGNA 68
>pdb|1LVW|A Chain A, Crystal Structure Of Glucose-1-phosphate
Thymidylyltransferase, Rmla, Complex With Dtdp
pdb|1LVW|B Chain B, Crystal Structure Of Glucose-1-phosphate
Thymidylyltransferase, Rmla, Complex With Dtdp
pdb|1LVW|C Chain C, Crystal Structure Of Glucose-1-phosphate
Thymidylyltransferase, Rmla, Complex With Dtdp
pdb|1LVW|D Chain D, Crystal Structure Of Glucose-1-phosphate
Thymidylyltransferase, Rmla, Complex With Dtdp
Length = 295
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 242 SAVYGGTYMLN-KPECKVEFDEEGKVVGVTSEGETAKCKKVVCDPSYLPNKVRKVGR 297
AV G Y+ + +P VEFD EG+V+ + + K VV + N+V ++ R
Sbjct: 132 GAVIFGYYVRDPRPFGVVEFDSEGRVISIEEKPSRPKSNYVVPGLYFYDNQVVEIAR 188
>pdb|3E53|A Chain A, Crystal Structure Of N-Terminal Domain Of A Fatty Acyl Amp
Ligase Faal28 From Mycobacterium Tuberculosis
Length = 480
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 8/61 (13%)
Query: 208 MKLYAESIARFQGGSPYIYPLYGLGELPQAFARLSAVYGGTYMLNKPECKVEFDEEGKVV 267
+K +A+ ARF I P YGL E + VY T +P V+FD E
Sbjct: 328 IKRFADRFARFNLQERVIRPSYGLAE--------ATVYVATSKPGQPPETVDFDTESLSA 379
Query: 268 G 268
G
Sbjct: 380 G 380
>pdb|3CF4|A Chain A, Structure Of The Codh Component Of The M. Barkeri Acds
Complex
Length = 807
Score = 28.9 bits (63), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 367 LKPGIDLLGPVDEIFYDIYDRYEPVNEPSLDNCFIST 403
L PG++ G D+ + + DRYEPV P D C T
Sbjct: 46 LFPGLE--GYRDDWNFKLLDRYEPVITPMCDQCCYCT 80
>pdb|2Z5Y|A Chain A, Crystal Structure Of Human Monoamine Oxidase A (G110a)
With Harmine
Length = 513
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 5 YDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSL 46
+DV+V+G G+ + LL+ G+ VL ++ D GG + ++
Sbjct: 3 FDVVVIGGGISGLSAAKLLTEYGVSVLVLEARDRVGGRTYTI 44
>pdb|2Z5X|A Chain A, Crystal Structure Of Human Monoamine Oxidase A With
Harmine
Length = 513
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 5 YDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSL 46
+DV+V+G G+ + LL+ G+ VL ++ D GG + ++
Sbjct: 3 FDVVVIGGGISGLSAAKLLTEYGVSVLVLEARDRVGGRTYTI 44
>pdb|2BXR|A Chain A, Human Monoamine Oxidase A In Complex With Clorgyline,
Crystal Form A
pdb|2BXR|B Chain B, Human Monoamine Oxidase A In Complex With Clorgyline,
Crystal Form A
pdb|2BXS|A Chain A, Human Monoamine Oxidase A In Complex With Clorgyline,
Crystal Form B
pdb|2BXS|B Chain B, Human Monoamine Oxidase A In Complex With Clorgyline,
Crystal Form B
Length = 527
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 5 YDVIVLGTGLKECILSGLLSVDGLKVLHMDRNDYYGGESSSL 46
+DV+V+G G+ + LL+ G+ VL ++ D GG + ++
Sbjct: 14 FDVVVIGGGISGLSAAKLLTEYGVSVLVLEARDRVGGRTYTI 55
>pdb|3S1S|A Chain A, Characterization And Crystal Structure Of The Type Iig
Restriction Endonuclease Bpusi
Length = 878
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 2/63 (3%)
Query: 289 PNKVRKVGRVARAIAIMSHPIPNTNDS--HSVQVILPQKQLGRRSDMYLFCCSYSHNVAP 346
P ++ + GR + S P PNTND+ +V ++ LGRR H++A
Sbjct: 229 PGRLLEEGRKIDFNVLFSEPEPNTNDNDIWNVNLLSSLNDLGRRILTGDELAELIHDIAT 288
Query: 347 KGK 349
+G+
Sbjct: 289 RGR 291
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
0.319 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: 13,412,497
Number of Sequences: 62578
Number of extensions: 594232
Number of successful extensions: 1673
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1623
Number of HSP's gapped (non-prelim): 38
length of query: 444
length of database: 14,973,337
effective HSP length: 102
effective length of query: 342
effective length of database: 8,590,381
effective search space: 2937910302
effective search space used: 2937910302
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)