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= 004657
(739 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FWE|A Chain A, Native Structure Of Lsd2 /aof1/kdm1b In Spacegroup Of
C2221 At 2.13a
pdb|4FWF|A Chain A, Complex Structure Of Lsd2/aof1/kdm1b With H3k4 Mimic
pdb|4FWJ|A Chain A, Native Structure Of Lsd2/aof1/kdm1b In Spacegroup Of I222
At 2.9a
pdb|4FWJ|B Chain B, Native Structure Of Lsd2/aof1/kdm1b In Spacegroup Of I222
At 2.9a
Length = 796
Score = 171 bits (432), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 123/392 (31%), Positives = 180/392 (45%), Gaps = 22/392 (5%)
Query: 157 YIVVRNHILSLWRSNVSVWLTREQALESI------RSEHKTLVDSAYDFLLEHGYINFGL 210
Y+ +RN IL+LW +N LT ++ + I R V+ F+ G IN G+
Sbjct: 281 YLALRNLILALWYTNCKEALTPQKCIPHIIVRGLVRIRCVQEVERILYFMTRKGLINTGV 340
Query: 211 APPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQLISMGFKVVVLEGRERPGGRVKTRK 270
+ L RQL + G KV VLE ++R GGRV K
Sbjct: 341 LSVGADQYLLP-KDYHNKSVIIIGAGPAGLAAARQLHNFGIKVTVLEAKDRIGGRVWDDK 399
Query: 271 MKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELPLHKVRDICPLYLPNGKAIDADIDSG 330
++ G NP+ ++ QL + +HK + C L G+ D ID
Sbjct: 400 ---SFKGVTVGRGAQIVNGCINNPVALMCEQLGISMHKFGERCDLIQEGGRITDPTIDKR 456
Query: 331 VEVSFNKLLDRVCKLRHDMIEEFKSVDVPLGVALEAFRNVYKVAEDLQ----ERMLLNWH 386
++ FN LLD V + R D + DVPLG +E + +Q E +L +H
Sbjct: 457 MDFHFNALLDVVSEWRKDKTQ---LQDVPLGEKIEEIYKAFIKESGIQFSELEGQVLQFH 513
Query: 387 LANLEYANASLMSNLSMAYWDQDDPY-EMGGDHCFIPGGNEWFVRALAEDLPIFYQRTVQ 445
L+NLEYA S + +S WD ++ + + GDH + G + LAE L I + VQ
Sbjct: 514 LSNLEYACGSNLHQVSARSWDHNEFFAQFAGDHTLLTPGYSVIIEKLAEGLDIQLKSPVQ 573
Query: 446 SIRYGVDGVMVYAG-GQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLL 504
I Y D V V G + VL TVPL +L+KG I+F P L ++K AI LG G++
Sbjct: 574 CIDYSGDEVQVTTTDGTGYSAQKVLVTVPLALLQKGAIQFNPPLSEKKMKAINSLGAGII 633
Query: 505 NKVAMLFPHNFWGGEI---DTFGHLTEDSSMR 533
K+A+ FP+ FW ++ D FGH+ +S R
Sbjct: 634 EKIALQFPYRFWDSKVQGADFFGHVPPSASKR 665
>pdb|4GU1|A Chain A, Crystal Structure Of Lsd2
pdb|4GU1|B Chain B, Crystal Structure Of Lsd2
Length = 784
Score = 170 bits (431), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 123/392 (31%), Positives = 180/392 (45%), Gaps = 22/392 (5%)
Query: 157 YIVVRNHILSLWRSNVSVWLTREQALESI------RSEHKTLVDSAYDFLLEHGYINFGL 210
Y+ +RN IL+LW +N LT ++ + I R V+ F+ G IN G+
Sbjct: 269 YLALRNLILALWYTNCKEALTPQKCIPHIIVRGLVRIRCVQEVERILYFMTRKGLINTGV 328
Query: 211 APPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQLISMGFKVVVLEGRERPGGRVKTRK 270
+ L RQL + G KV VLE ++R GGRV K
Sbjct: 329 LSVGADQYLLP-KDYHNKSVIIIGAGPAGLAAARQLHNFGIKVTVLEAKDRIGGRVWDDK 387
Query: 271 MKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELPLHKVRDICPLYLPNGKAIDADIDSG 330
++ G NP+ ++ QL + +HK + C L G+ D ID
Sbjct: 388 ---SFKGVTVGRGAQIVNGCINNPVALMCEQLGISMHKFGERCDLIQEGGRITDPTIDKR 444
Query: 331 VEVSFNKLLDRVCKLRHDMIEEFKSVDVPLGVALEAFRNVYKVAEDLQ----ERMLLNWH 386
++ FN LLD V + R D + DVPLG +E + +Q E +L +H
Sbjct: 445 MDFHFNALLDVVSEWRKDKTQ---LQDVPLGEKIEEIYKAFIKESGIQFSELEGQVLQFH 501
Query: 387 LANLEYANASLMSNLSMAYWDQDDPY-EMGGDHCFIPGGNEWFVRALAEDLPIFYQRTVQ 445
L+NLEYA S + +S WD ++ + + GDH + G + LAE L I + VQ
Sbjct: 502 LSNLEYACGSNLHQVSARSWDHNEFFAQFAGDHTLLTPGYSVIIEKLAEGLDIQLKSPVQ 561
Query: 446 SIRYGVDGVMVYAG-GQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLL 504
I Y D V V G + VL TVPL +L+KG I+F P L ++K AI LG G++
Sbjct: 562 CIDYSGDEVQVTTTDGTGYSAQKVLVTVPLALLQKGAIQFNPPLSEKKMKAINSLGAGII 621
Query: 505 NKVAMLFPHNFWGGEI---DTFGHLTEDSSMR 533
K+A+ FP+ FW ++ D FGH+ +S R
Sbjct: 622 EKIALQFPYRFWDSKVQGADFFGHVPPSASKR 653
>pdb|4GUR|A Chain A, Crystal Structure Of Lsd2-npac With H3 In Space Group P21
pdb|4GUS|A Chain A, Crystal Structure Of Lsd2-npac With H3 In Space Group
P3221
pdb|4GUT|A Chain A, Crystal Structure Of Lsd2-npac
pdb|4GUU|A Chain A, Crystal Structure Of Lsd2-npac With Tranylcypromine
pdb|4GU0|A Chain A, Crystal Structure Of Lsd2 With H3
pdb|4GU0|B Chain B, Crystal Structure Of Lsd2 With H3
pdb|4GU0|C Chain C, Crystal Structure Of Lsd2 With H3
pdb|4GU0|D Chain D, Crystal Structure Of Lsd2 With H3
pdb|4HSU|A Chain A, Crystal Structure Of Lsd2-npac With H3(1-26)in Space Group
P21
Length = 776
Score = 170 bits (431), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 123/392 (31%), Positives = 180/392 (45%), Gaps = 22/392 (5%)
Query: 157 YIVVRNHILSLWRSNVSVWLTREQALESI------RSEHKTLVDSAYDFLLEHGYINFGL 210
Y+ +RN IL+LW +N LT ++ + I R V+ F+ G IN G+
Sbjct: 261 YLALRNLILALWYTNCKEALTPQKCIPHIIVRGLVRIRCVQEVERILYFMTRKGLINTGV 320
Query: 211 APPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQLISMGFKVVVLEGRERPGGRVKTRK 270
+ L RQL + G KV VLE ++R GGRV K
Sbjct: 321 LSVGADQYLLP-KDYHNKSVIIIGAGPAGLAAARQLHNFGIKVTVLEAKDRIGGRVWDDK 379
Query: 271 MKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELPLHKVRDICPLYLPNGKAIDADIDSG 330
++ G NP+ ++ QL + +HK + C L G+ D ID
Sbjct: 380 ---SFKGVTVGRGAQIVNGCINNPVALMCEQLGISMHKFGERCDLIQEGGRITDPTIDKR 436
Query: 331 VEVSFNKLLDRVCKLRHDMIEEFKSVDVPLGVALEAFRNVYKVAEDLQ----ERMLLNWH 386
++ FN LLD V + R D + DVPLG +E + +Q E +L +H
Sbjct: 437 MDFHFNALLDVVSEWRKDKTQ---LQDVPLGEKIEEIYKAFIKESGIQFSELEGQVLQFH 493
Query: 387 LANLEYANASLMSNLSMAYWDQDDPY-EMGGDHCFIPGGNEWFVRALAEDLPIFYQRTVQ 445
L+NLEYA S + +S WD ++ + + GDH + G + LAE L I + VQ
Sbjct: 494 LSNLEYACGSNLHQVSARSWDHNEFFAQFAGDHTLLTPGYSVIIEKLAEGLDIQLKSPVQ 553
Query: 446 SIRYGVDGVMVYAG-GQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLL 504
I Y D V V G + VL TVPL +L+KG I+F P L ++K AI LG G++
Sbjct: 554 CIDYSGDEVQVTTTDGTGYSAQKVLVTVPLALLQKGAIQFNPPLSEKKMKAINSLGAGII 613
Query: 505 NKVAMLFPHNFWGGEI---DTFGHLTEDSSMR 533
K+A+ FP+ FW ++ D FGH+ +S R
Sbjct: 614 EKIALQFPYRFWDSKVQGADFFGHVPPSASKR 645
>pdb|2X0L|A Chain A, Crystal Structure Of A Neuro-Specific Splicing Variant Of
Human Histone Lysine Demethylase Lsd1
Length = 734
Score = 168 bits (426), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 406 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 465
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 466 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 525
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 526 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 585
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 586 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 645
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 646 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 705
Query: 605 SI 606
I
Sbjct: 706 RI 707
Score = 108 bits (271), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 87/287 (30%), Positives = 131/287 (45%), Gaps = 39/287 (13%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 61 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 119
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 120 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 174
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 175 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 230
Query: 306 LHKVRDICPLYLPNGKA----IDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPL 360
L K++ CPLY NG+A + + D VE FN+LL+ L H + + V L
Sbjct: 231 LAKIKQKCPLYEANGQADTVKVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSL 290
Query: 361 GVALEA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
G ALE ++ + K E+L+E LLN + NL+
Sbjct: 291 GQALEVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 334
>pdb|2V1D|A Chain A, Structural Basis Of Lsd1-Corest Selectivity In Histone H3
Recognition
pdb|2Y48|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A N-
Terminal Snail Peptide
Length = 730
Score = 168 bits (426), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 402 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 461
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 462 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 521
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 522 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 581
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 582 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 641
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 642 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 701
Query: 605 SI 606
I
Sbjct: 702 RI 703
Score = 114 bits (286), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 61 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 119
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 120 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 174
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 175 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 230
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 231 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 290
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 291 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 330
>pdb|2XAF|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (+)-Cis-2-Phenylcyclopropyl-1-Amine
pdb|2XAG|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
Para-Bromo- (-)-Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAH|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With (+)-
Trans-2-Phenylcyclopropyl-1-Amine
pdb|2XAJ|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With
(-)-Trans- 2-Phenylcyclopropyl-1-Amine
pdb|2XAQ|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2584, 13b)
pdb|2XAS|A Chain A, Crystal Structure Of Lsd1-Corest In Complex With A
Tranylcypromine Derivative (Mc2580, 14e)
Length = 852
Score = 168 bits (425), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 524 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 583
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKK--GTIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 584 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 643
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 644 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 703
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 704 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 763
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 764 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 823
Query: 605 SI 606
I
Sbjct: 824 RI 825
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 183 LPHDRMTSQEA-ACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 241
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 242 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 296
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 297 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 352
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 353 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 412
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 413 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 452
>pdb|2DW4|A Chain A, Crystal Structure Of Human Lsd1 At 2.3 A Resolution
Length = 660
Score = 168 bits (425), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 353 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 412
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 413 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 472
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 473 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 532
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 533 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 592
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 593 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 652
Query: 605 SI 606
I
Sbjct: 653 RI 654
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 12 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 70
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 71 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 125
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 126 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 181
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 182 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 241
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 242 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 281
>pdb|2H94|A Chain A, Crystal Structure And Mechanism Of Human Lysine-Specific
Demethylase-1
Length = 664
Score = 168 bits (425), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 353 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 412
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 413 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 472
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 473 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 532
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 533 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 592
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 593 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 652
Query: 605 SI 606
I
Sbjct: 653 RI 654
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 12 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 70
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 71 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 125
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 126 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 181
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 182 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 241
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 242 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 281
>pdb|2IW5|A Chain A, Structural Basis For Corest-dependent Demethylation Of
Nucleosomes By The Human Lsd1 Histone Demethylase
pdb|2UXN|A Chain A, Structural Basis Of Histone Demethylation By Lsd1 Revealed
By Suicide Inactivation
pdb|2UXX|A Chain A, Human Lsd1 Histone Demethylase-Corest In Complex With An
Fad-Tranylcypromine Adduct
Length = 666
Score = 168 bits (425), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 354 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 413
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 414 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 473
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 474 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 533
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 534 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 593
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 594 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 653
Query: 605 SI 606
I
Sbjct: 654 RI 655
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 13 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 71
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 72 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 126
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 127 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 182
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 183 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 242
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 243 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 282
>pdb|2EJR|A Chain A, Lsd1-Tranylcypromine Complex
pdb|2Z3Y|A Chain A, Crystal Structure Of Lysine-Specific Demethylase1
pdb|2Z5U|A Chain A, Crystal Structure Of Lysine-Specific Histone Demethylase 1
pdb|3ABT|A Chain A, Crystal Structure Of Lsd1 In Complex With Trans-2-
Pentafluorophenylcyclopropylamine
pdb|3ABU|A Chain A, Crystal Structure Of Lsd1 In Complex With A 2-Pcpa
Derivative, S1201
Length = 662
Score = 168 bits (425), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 98/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 353 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 412
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ +RY G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 413 IKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 472
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 473 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 532
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 533 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 592
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 593 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 652
Query: 605 SI 606
I
Sbjct: 653 RI 654
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 12 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 70
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 71 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 125
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 126 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 181
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 182 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 241
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 242 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 281
>pdb|2HKO|A Chain A, Crystal Structure Of Lsd1
Length = 664
Score = 166 bits (420), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 97/302 (32%), Positives = 140/302 (46%), Gaps = 73/302 (24%)
Query: 378 QERMLLNWHLANLEYANASLMSNLSMAYWDQDDPYEMGGDHCFIPGGNEWFVRALAEDLP 437
++R +L+WH ANLE+ANA+ +S LS+ +WDQDD +E G H + G ALAE L
Sbjct: 353 RDRQILDWHFANLEFANATPLSTLSLKHWDQDDDFEFTGSHLTVRNGYSCVPVALAEGLD 412
Query: 438 IFYQRTVQSIRYGVDGVMVYAGGQE-------FRGDMVLCTVPLGVLKKG--TIEFVPEL 488
I V+ ++Y G V A ++ D VLCT+PLGVLK+ ++FVP L
Sbjct: 413 IKLNTAVRQVQYTASGCEVIAVNTRSTSQTFIYKCDAVLCTLPLGVLKQQPPAVQFVPPL 472
Query: 489 PQRKKDAIQRLGYGLLNKVAMLFPHNFWGGEIDTFGHLTEDSSMR--------------- 533
P+ K A+QR+G+G LNKV + F FW ++ FGH+ ++ R
Sbjct: 473 PEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVNLFGHVGSTTASRGELFLFWNLYKAPIL 532
Query: 534 --------------------------------------DPVQAICTRWGKDRFXXXXXXX 555
P + + +RW D +
Sbjct: 533 LALVAGEAAGIMENISDDVIVGRCLAILKGIFGSSAVPQPKETVVSRWRADPWARGSYSY 592
Query: 556 XXXXXXXDDYDILAETVGDG-----------RVFFAGEATNKQYPATMHGAFLSGMREAA 604
+DYD++A+ + G R+FFAGE T + YPAT+HGA LSG+REA
Sbjct: 593 VAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFFAGEHTIRNYPATVHGALLSGLREAG 652
Query: 605 SI 606
I
Sbjct: 653 RI 654
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 87/283 (30%), Positives = 131/283 (46%), Gaps = 35/283 (12%)
Query: 131 FPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALESIRSE 188
P D +T +E A I G +Q ++ +RN L LW N + LT E L+ + +
Sbjct: 12 LPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAP 70
Query: 189 HKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFGRVERXXXXXXXXXXXXXXXXRQ 245
+ + LV + +L HG INFG+ IK + G+V RQ
Sbjct: 71 YNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTGKV-----IIIGSGVSGLAAARQ 125
Query: 246 LISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLELP 305
L S G V +LE R+R GGRV T + V+TG+ GNP+ V+++Q+ +
Sbjct: 126 LQSFGMDVTLLEARDRVGGRVATFR----KGNYVADLGAMVVTGLGGNPMAVVSKQVNME 181
Query: 306 LHKVRDICPLYLPNGKAIDADIDSGVEVSFNKLLDRVCKLRHDM-IEEFKSVDVPLGVAL 364
L K++ CPLY NG+A+ + D VE FN+LL+ L H + + V LG AL
Sbjct: 182 LAKIKQKCPLYEANGQAVPKEKDEMVEQEFNRLLEATSYLSHQLDFNVLNNKPVSLGQAL 241
Query: 365 EA----------------FRNVYKVAEDLQERMLLNWHLANLE 391
E ++ + K E+L+E LLN + NL+
Sbjct: 242 EVVIQLQEKHVKDEQIEHWKKIVKTQEELKE--LLN-KMVNLK 281
>pdb|3KPF|A Chain A, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays
pdb|3KPF|B Chain B, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays
pdb|3KU9|A Chain A, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermine
pdb|3KU9|B Chain B, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermine
pdb|3L1R|A Chain A, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermidine
pdb|3L1R|B Chain B, X-Ray Structure Of The Mutant Lys300met Of Polyamine
Oxidase From Zea Mays In Complex With Spermidine
Length = 478
Score = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 2/80 (2%)
Query: 534 DPVQAICTRWGKDRFXXXXXXXXXXXXXXDDYDILAETVGDGRVFFAGEATNKQYPATMH 593
D + RW DRF +YD L VG RV+F GE T++ Y +H
Sbjct: 384 DATDILVPRWWSDRFYKGTFSNWPVGVNRYEYDQLRAPVG--RVYFTGEHTSEHYNGYVH 441
Query: 594 GAFLSGMREAASILRVAKRR 613
GA+LSG+ A ++ A+++
Sbjct: 442 GAYLSGIDSAEILINCAQKK 461
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 37/76 (48%), Gaps = 1/76 (1%)
Query: 442 RTVQSIRYGVDGVMVYAGGQE-FRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLG 500
+ V+ I+Y GV V + D V+ + LGVL+ I+F P+LP K AI +
Sbjct: 235 KVVREIKYSPGGVTVKTEDNSVYSADYVMVSASLGVLQSDLIQFKPKLPTWKVRAIYQFD 294
Query: 501 YGLLNKVAMLFPHNFW 516
+ + + FP FW
Sbjct: 295 MAVYTMIFLKFPRKFW 310
>pdb|1B37|A Chain A, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B37|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B37|C Chain C, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|A Chain A, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|C Chain C, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1H81|A Chain A, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H81|B Chain B, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H81|C Chain C, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H82|A Chain A, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H82|B Chain B, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H82|C Chain C, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H83|A Chain A, Structure Of Polyamine Oxidase In Complex With 1,8-
Diaminooctane
pdb|1H83|B Chain B, Structure Of Polyamine Oxidase In Complex With 1,8-
Diaminooctane
pdb|1H83|C Chain C, Structure Of Polyamine Oxidase In Complex With 1,8-
Diaminooctane
pdb|1H84|A Chain A, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H84|B Chain B, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H84|C Chain C, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H86|A Chain A, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H86|B Chain B, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H86|C Chain C, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
Length = 472
Score = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 2/80 (2%)
Query: 534 DPVQAICTRWGKDRFXXXXXXXXXXXXXXDDYDILAETVGDGRVFFAGEATNKQYPATMH 593
D + RW DRF +YD L VG RV+F GE T++ Y +H
Sbjct: 384 DATDILVPRWWSDRFYKGTFSNWPVGVNRYEYDQLRAPVG--RVYFTGEHTSEHYNGYVH 441
Query: 594 GAFLSGMREAASILRVAKRR 613
GA+LSG+ A ++ A+++
Sbjct: 442 GAYLSGIDSAEILINCAQKK 461
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 442 RTVQSIRYGVDGVMVYAGGQE-FRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLG 500
+ V+ I+Y GV V + D V+ + LGVL+ I+F P+LP K AI +
Sbjct: 235 KVVREIKYSPGGVTVKTEDNSVYSADYVMVSASLGVLQSDLIQFKPKLPTWKVRAIYQFD 294
Query: 501 YGLLNKVAMLFPHNFW 516
+ K+ + FP FW
Sbjct: 295 MAVYTKIFLKFPRKFW 310
>pdb|2COM|A Chain A, The Solution Structure Of The Swirm Domain Of Human Lsd1
Length = 124
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 47/103 (45%), Gaps = 6/103 (5%)
Query: 126 AISVGFPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALE 183
A P D +T +E A I G +Q ++ +RN L LW N + LT E L+
Sbjct: 17 AFQSRLPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQ 75
Query: 184 SIRSEHKT---LVDSAYDFLLEHGYINFGLAPPIKEVKLGSFG 223
+ + + + LV + +L HG INFG+ IK + G
Sbjct: 76 QLEAPYNSDTVLVHRVHSYLERHGLINFGIYKRIKPLPTKKTG 118
>pdb|2L3D|A Chain A, The Solution Structure Of The Short Form Swirm Domain Of
Lsd1
Length = 102
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 46/97 (47%), Gaps = 6/97 (6%)
Query: 126 AISVGFPVDSLTEEEIEANVVSKIGGTEQAN--YIVVRNHILSLWRSNVSVWLTREQALE 183
A P D +T +E A I G +Q ++ +RN L LW N + LT E L+
Sbjct: 7 AFQSRLPHDRMTSQE-AACFPDIISGPQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQ 65
Query: 184 SIRSEHKT---LVDSAYDFLLEHGYINFGLAPPIKEV 217
+ + + + LV + +L HG INFG+ IK +
Sbjct: 66 QLEAPYNSDTVLVHRVHSYLERHGLINFGIYKRIKPL 102
>pdb|1RSG|A Chain A, Crystal Structure Of The Polyamine Oxidase Fms1 From Yeast
pdb|1RSG|B Chain B, Crystal Structure Of The Polyamine Oxidase Fms1 From Yeast
Length = 516
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 460 GQEFRGDMVLCTVPLGVLK---------KGTIEFVPELPQRKKDAIQRLGYGLLNKVAML 510
G + D V+ TVP VL +G IEF P L +DA ++ +G L KV
Sbjct: 241 GTVYNADYVIITVPQSVLNLSVQPEKNLRGRIEFQPPLKPVIQDAFDKIHFGALGKVIFE 300
Query: 511 FPHNFWGGE 519
F W E
Sbjct: 301 FEECCWSNE 309
Score = 29.6 bits (65), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 574 DGRVFFAGEATNKQYPATMHGAFLSGMREAASI 606
D R+ FAGE T +GA+ SG REA I
Sbjct: 471 DSRIRFAGEHTIXDGAGCAYGAWESGRREATRI 503
>pdb|1YY5|A Chain A, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1YY5|B Chain B, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|A Chain A, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|B Chain B, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|C Chain C, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|D Chain D, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
Length = 513
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 460 GQEFRGDMVLCTVPLGVLK---------KGTIEFVPELPQRKKDAIQRLGYGLLNKVAML 510
G + D V+ TVP VL +G IEF P L +DA ++ +G L KV
Sbjct: 241 GTVYNADYVIITVPQSVLNLSVQPEKNLRGRIEFQPPLKPVIQDAFDKIHFGALGKVIFE 300
Query: 511 FPHNFWGGE 519
F W E
Sbjct: 301 FEECCWSNE 309
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 574 DGRVFFAGEATNKQYPATMHGAFLSGMREAASI 606
D R+ FAGE T +GA+ SG REA I
Sbjct: 471 DSRIRFAGEHTIMDGAGCAYGAWESGRREATRI 503
>pdb|1Z6L|A Chain A, Crystal Structure Of Fms1 In Complex With Its Substrate
pdb|1Z6L|B Chain B, Crystal Structure Of Fms1 In Complex With Its Substrate
pdb|3BI2|A Chain A, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI2|B Chain B, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI4|A Chain A, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI4|B Chain B, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI5|A Chain A, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI5|B Chain B, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BNM|B Chain B, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3r,3'r)-
Methylated Spermine
pdb|3BNM|A Chain A, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3r,3'r)-
Methylated Spermine
pdb|3BNU|B Chain B, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3s,3's)-
Methylated Spermine
pdb|3BNU|A Chain A, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3s,3's)-
Methylated Spermine
pdb|3CN8|B Chain B, Crystal Structure Of Fms1 In Complex With Spermidine
pdb|3CN8|A Chain A, Crystal Structure Of Fms1 In Complex With Spermidine
pdb|3CND|B Chain B, Crystal Structure Of Fms1 In Complex With N1-Acspermine
pdb|3CND|A Chain A, Crystal Structure Of Fms1 In Complex With N1-Acspermine
pdb|3CNP|B Chain B, Crystal Structure Of Fms1 In Complex With
S-n1-acmespermidine
pdb|3CNP|A Chain A, Crystal Structure Of Fms1 In Complex With
S-n1-acmespermidine
pdb|3CNS|A Chain A, Crystal Structure Of Fms1 In Complex With
S-Bz-Mespermidine
pdb|3CNS|B Chain B, Crystal Structure Of Fms1 In Complex With
S-Bz-Mespermidine
pdb|3CNT|B Chain B, Crystal Structure Of Fms1 In Complex With
R-Bz-Mespermidine
pdb|3CNT|A Chain A, Crystal Structure Of Fms1 In Complex With
R-Bz-Mespermidine
Length = 516
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 460 GQEFRGDMVLCTVPLGVLK---------KGTIEFVPELPQRKKDAIQRLGYGLLNKVAML 510
G + D V+ TVP VL +G IEF P L +DA ++ +G L KV
Sbjct: 241 GTVYNADYVIITVPQSVLNLSVQPEKNLRGRIEFQPPLKPVIQDAFDKIHFGALGKVIFE 300
Query: 511 FPHNFWGGE 519
F W E
Sbjct: 301 FEECCWSNE 309
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 574 DGRVFFAGEATNKQYPATMHGAFLSGMREAASI 606
D R+ FAGE T +GA+ SG REA I
Sbjct: 471 DSRIRFAGEHTIMDGAGCAYGAWESGRREATRI 503
>pdb|4GDP|A Chain A, Yeast Polyamine Oxidase Fms1, N195a Mutant
pdb|4GDP|B Chain B, Yeast Polyamine Oxidase Fms1, N195a Mutant
pdb|4GDP|C Chain C, Yeast Polyamine Oxidase Fms1, N195a Mutant
pdb|4GDP|D Chain D, Yeast Polyamine Oxidase Fms1, N195a Mutant
Length = 516
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 460 GQEFRGDMVLCTVPLGVLK---------KGTIEFVPELPQRKKDAIQRLGYGLLNKVAML 510
G + D V+ TVP VL +G IEF P L +DA ++ +G L KV
Sbjct: 241 GTVYNADYVIITVPQSVLNLSVQPEKNLRGRIEFQPPLKPVIQDAFDKIHFGALGKVIFE 300
Query: 511 FPHNFWGGE 519
F W E
Sbjct: 301 FEECCWSNE 309
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 574 DGRVFFAGEATNKQYPATMHGAFLSGMREAASI 606
D R+ FAGE T +GA+ SG REA I
Sbjct: 471 DSRIRFAGEHTIMDGAGCAYGAWESGRREATRI 503
>pdb|4ECH|A Chain A, Yeast Polyamine Oxidase Fms1, H67q Mutant
pdb|4ECH|B Chain B, Yeast Polyamine Oxidase Fms1, H67q Mutant
Length = 516
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 9/69 (13%)
Query: 460 GQEFRGDMVLCTVPLGVLK---------KGTIEFVPELPQRKKDAIQRLGYGLLNKVAML 510
G + D V+ TVP VL +G IEF P L +DA ++ +G L KV
Sbjct: 241 GTVYNADYVIITVPQSVLNLSVQPEKNLRGRIEFQPPLKPVIQDAFDKIHFGALGKVIFE 300
Query: 511 FPHNFWGGE 519
F W E
Sbjct: 301 FEECCWSNE 309
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 574 DGRVFFAGEATNKQYPATMHGAFLSGMREAASI 606
D R+ FAGE T +GA+ SG REA I
Sbjct: 471 DSRIRFAGEHTIMDGAGCAYGAWESGRREATRI 503
>pdb|2YG7|A Chain A, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: A394c-A396t-Q431g Triple Mutant
pdb|2YG7|B Chain B, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: A394c-A396t-Q431g Triple Mutant
Length = 453
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 428 FVRALAEDLPIFYQRTVQSIRYGVDGVMVYAGGQ-EFRGDMVLCTVPLGVLKKGTIEFVP 486
AL +D +F V+++++ G V A G V+ VP + + I + P
Sbjct: 221 MAEALGDD--VFLNAPVRTVKWNESGATVLADGDIRVEASRVILAVPPNLYSR--ISYDP 276
Query: 487 ELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
LP+R+ Q GL+ KV ++ FW
Sbjct: 277 PLPRRQHQMHQHQSLGLVIKVHAVYETPFW 306
>pdb|2YG5|A Chain A, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: A394c Mutant
Length = 453
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 428 FVRALAEDLPIFYQRTVQSIRYGVDGVMVYAGGQ-EFRGDMVLCTVPLGVLKKGTIEFVP 486
AL +D +F V+++++ G V A G V+ VP + + I + P
Sbjct: 221 MAEALGDD--VFLNAPVRTVKWNESGATVLADGDIRVEASRVILAVPPNLYSR--ISYDP 276
Query: 487 ELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
LP+R+ Q GL+ KV ++ FW
Sbjct: 277 PLPRRQHQMHQHQSLGLVIKVHAVYETPFW 306
>pdb|2YG3|A Chain A, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: Wild Type Enzyme
pdb|2YG3|B Chain B, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: Wild Type Enzyme
pdb|2YG4|A Chain A, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: Wild Type Bound To Putrescine
pdb|2YG4|B Chain B, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: Wild Type Bound To Putrescine
Length = 453
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 428 FVRALAEDLPIFYQRTVQSIRYGVDGVMVYAGGQ-EFRGDMVLCTVPLGVLKKGTIEFVP 486
AL +D +F V+++++ G V A G V+ VP + + I + P
Sbjct: 221 MAEALGDD--VFLNAPVRTVKWNESGATVLADGDIRVEASRVILAVPPNLYSR--ISYDP 276
Query: 487 ELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
LP+R+ Q GL+ KV ++ FW
Sbjct: 277 PLPRRQHQMHQHQSLGLVIKVHAVYETPFW 306
>pdb|2YG6|A Chain A, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: P15i-A394c Double Mutant
pdb|2YG6|B Chain B, Structure-Based Redesign Of Cofactor Binding In Putrescine
Oxidase: P15i-A394c Double Mutant
Length = 453
Score = 36.6 bits (83), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 5/90 (5%)
Query: 428 FVRALAEDLPIFYQRTVQSIRYGVDGVMVYAGGQ-EFRGDMVLCTVPLGVLKKGTIEFVP 486
AL +D +F V+++++ G V A G V+ VP + + I + P
Sbjct: 221 MAEALGDD--VFLNAPVRTVKWNESGATVLADGDIRVEASRVILAVPPNLYSR--ISYDP 276
Query: 487 ELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
LP+R+ Q GL+ KV ++ FW
Sbjct: 277 PLPRRQHQMHQHQSLGLVIKVHAVYETPFW 306
>pdb|2VVL|G Chain G, The Structure Of Mao-N-D3, A Variant Of Monoamine Oxidase
From Aspergillus Niger
Length = 495
Score = 36.2 bits (82), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 460 GQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKV 507
G+EF V+CT+PL VL TI+F P L + A+Q + KV
Sbjct: 296 GREFVAKRVVCTIPLNVLS--TIQFSPALSTERISAMQAGHVSMCTKV 341
>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 = 35.8 bits (81), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 460 GQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKV 507
G+EF V+CT+PL VL TI+F P L + A+Q + KV
Sbjct: 296 GREFVAKRVVCTIPLNVLS--TIQFSPALSTERISAMQAGHVSMCTKV 341
>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 = 35.8 bits (81), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 460 GQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKV 507
G+EF V+CT+PL VL TI+F P L + A+Q + KV
Sbjct: 296 GREFVAKRVVCTIPLNVLS--TIQFSPALSTERISAMQAGHVSMCTKV 341
>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 = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 461 QEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
+ + V+ +P + K I F PELP + IQRL G + K M + FW
Sbjct: 262 EHYECKYVINAIPPTLTAK--IHFRPELPAERNQLIQRLPMGAVIKCMMYYKEAFW 315
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 575 GRVFFAGEATNKQYPATMHGAFLSGMREAASIL 607
GR+FFAG T ++ M GA +G R A +L
Sbjct: 428 GRIFFAGTETATKWSGYMEGAVEAGERAAREVL 460
>pdb|2Z5Y|A Chain A, Crystal Structure Of Human Monoamine Oxidase A (G110a)
With Harmine
Length = 513
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 461 QEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
+ + V+ +P + K I F PELP + IQRL G + K M + FW
Sbjct: 251 EHYECKYVINAIPPTLTAK--IHFRPELPAERNQLIQRLPMGAVIKCMMYYKEAFW 304
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 575 GRVFFAGEATNKQYPATMHGAFLSGMREAASIL 607
GR+FFAG T ++ M GA +G R A +L
Sbjct: 417 GRIFFAGTETATKWSGYMEGAVEAGERAAREVL 449
>pdb|2Z5X|A Chain A, Crystal Structure Of Human Monoamine Oxidase A With
Harmine
Length = 513
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 461 QEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
+ + V+ +P + K I F PELP + IQRL G + K M + FW
Sbjct: 251 EHYECKYVINAIPPTLTAK--IHFRPELPAERNQLIQRLPMGAVIKCMMYYKEAFW 304
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 575 GRVFFAGEATNKQYPATMHGAFLSGMREAASIL 607
GR+FFAG T ++ M GA +G R A +L
Sbjct: 417 GRIFFAGTETATKWSGYMEGAVEAGERAAREVL 449
>pdb|3RHA|A Chain A, The Crystal Structure Of Oxidoreductase From Arthrobacter
Aurescens
pdb|3RHA|B Chain B, The Crystal Structure Of Oxidoreductase From Arthrobacter
Aurescens
Length = 482
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 444 VQSIRYGVDGVMVYAGGQEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGL 503
V++I++ +GV V + V+ VP + + + F P LP+R+ Q GL
Sbjct: 237 VRTIKWDENGVSVVSERATVNARFVIMAVPPNLYSR--VSFDPPLPRRQHQMHQHQSLGL 294
Query: 504 LNKVAMLFPHNFW 516
+ KV ++ FW
Sbjct: 295 VIKVHAVYDTPFW 307
>pdb|2JAE|A Chain A, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In The Unbound State
pdb|2JAE|B Chain B, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In The Unbound State
pdb|2JB1|A Chain A, The L-Amino Acid Oxidase From Rhodococcus Opacus In
Complex With L-Alanine
pdb|2JB1|B Chain B, The L-Amino Acid Oxidase From Rhodococcus Opacus In
Complex With L-Alanine
pdb|2JB3|A Chain A, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With O-Aminobenzoate
pdb|2JB3|B Chain B, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With O-Aminobenzoate
pdb|2JB2|A Chain A, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With L-Phenylalanine.
pdb|2JB2|B Chain B, The Structure Of L-Amino Acid Oxidase From Rhodococcus
Opacus In Complex With L-Phenylalanine
Length = 489
Score = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/26 (57%), Positives = 18/26 (69%)
Query: 245 QLISMGFKVVVLEGRERPGGRVKTRK 270
+L G+KV VLE R RPGGRV T +
Sbjct: 29 ELQKAGYKVTVLEARTRPGGRVWTAR 54
>pdb|1O5W|A Chain A, The Structure Basis Of Specific Recognitions For
Substrates And Inhibitors Of Rat Monoamine Oxidase A
pdb|1O5W|B Chain B, The Structure Basis Of Specific Recognitions For
Substrates And Inhibitors Of Rat Monoamine Oxidase A
pdb|1O5W|C Chain C, The Structure Basis Of Specific Recognitions For
Substrates And Inhibitors Of Rat Monoamine Oxidase A
pdb|1O5W|D Chain D, The Structure Basis Of Specific Recognitions For
Substrates And Inhibitors Of Rat Monoamine Oxidase A
Length = 534
Score = 33.5 bits (75), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 4/42 (9%)
Query: 575 GRVFFAGEATNKQYPATMHGAFLSGMREAASIL----RVAKR 612
GR++FAG T Q+ M GA +G R A +L +VAK+
Sbjct: 436 GRIYFAGTETATQWSGYMEGAVEAGERAAREVLNALGKVAKK 477
Score = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 461 QEFRGDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYGLLNKVAMLFPHNFW 516
+ + V+ +P + K I F PELP + IQRL G + K + + FW
Sbjct: 270 EHYECKYVISAIPPILTAK--IHFKPELPPERNQLIQRLPMGAVIKCMVYYKEAFW 323
>pdb|1F8R|A Chain A, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|B Chain B, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|C Chain C, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8R|D Chain D, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma Complexed With Citrate
pdb|1F8S|A Chain A, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|B Chain B, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|C Chain C, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|D Chain D, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|E Chain E, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|F Chain F, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|G Chain G, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|1F8S|H Chain H, Crystal Structure Of L-Amino Acid Oxidase From
Calloselasma Rhodostoma, Complexed With Three Molecules
Of O-Aminobenzoate.
pdb|2IID|A Chain A, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
pdb|2IID|B Chain B, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
pdb|2IID|C Chain C, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
pdb|2IID|D Chain D, Structure Of L-Amino Acid Oxidase From Calloselasma
Rhodostoma In Complex With L-Phenylalanine
Length = 498
Score = 32.7 bits (73), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 17/25 (68%)
Query: 246 LISMGFKVVVLEGRERPGGRVKTRK 270
L G +V VLE ERPGGRV+T +
Sbjct: 52 LAGAGHQVTVLEASERPGGRVRTYR 76
>pdb|3K7T|A Chain A, Crystal Structure Of Apo-Form 6-Hydroxy-L-Nicotine
Oxidase, Crystal Form P3121
pdb|3K7T|B Chain B, Crystal Structure Of Apo-Form 6-Hydroxy-L-Nicotine
Oxidase, Crystal Form P3121
Length = 425
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 66/278 (23%), Positives = 108/278 (38%), Gaps = 32/278 (11%)
Query: 244 RQLISMGFKVVVLEGRERPGGRVKTRKMKCXXXXXXXXXXXSVLTGINGNPLGVLARQLE 303
R L + G KV++LEG ER GGR +R+ + + L + L +
Sbjct: 18 RDLTNAGKKVLLLEGGERLGGRAYSRESR-NVPGLRVEIGGAYLHRKHHPRLAAELDRYG 76
Query: 304 LPLHKVRD-------ICPLYLPNGKAIDADIDSGVEVSFNKLL---DRVCKLRHDMIEEF 353
+P + + P + I VE + LL R+ + ++
Sbjct: 77 IPTAAASEFTSFRHRLGPTAVDQAFPIPGSEAVAVEAATYTLLRDAHRIDLEKGLENQDL 136
Query: 354 KSVDVPLGVALEAFRNVYKVAEDL---QERMLLNWHLANL----EYANASLMSNLSMAYW 406
+ +D+PL N Y DL + LL W L + A+A M L A+
Sbjct: 137 EDLDIPL--------NEYVDKLDLPPVSRQFLLAWAWNMLGQPADQASALWMLQLVAAHH 188
Query: 407 DQDDPYEMGGDHCFIPGGNEWFVRALAEDLP-IFYQRTVQSIRYGVDGVMVYAG-GQEFR 464
+ D F G + V A+++++P I Q V I D V V G F+
Sbjct: 189 YSILGVVLSLDEVFSNGSAD-LVDAMSQEIPEIRLQTVVTGIDQSGDVVNVTVKDGHAFQ 247
Query: 465 GDMVLCTVPLGVLKKGTIEFVPELPQRKKDAIQRLGYG 502
V+ P+ ++ I F P LP+R++ I+ G+G
Sbjct: 248 AHSVIVATPMNTWRR--IVFTPALPERRRSVIEE-GHG 282
>pdb|3K7M|X Chain X, Crystal Structure Of 6-Hydroxy-L-Nicotine Oxidase From
Arthrobacter Nicotinovorans
pdb|3K7Q|X Chain X, Crystal Structure Of Substrate-Bound 6-Hydroxy-L-Nicotine
Oxidase From Arthrobacter Nicotinovorans
pdb|3NG7|X Chain X, Complex Of Dithionite-Reduced 6-Hydroxy-L-Nicotine Oxidase
With Substrate Bound At Active Site And Inhibitor At
Exit Cavity
pdb|3NGC|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Intermediate
Methylmyosmine Product Formed During Catalytic Turnover
pdb|3NH3|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Final Ketone
Product Formed During Catalytic Turnover
pdb|3NHO|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Product Bound
At Active Site
pdb|3NK0|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Inhibitor
Bound At Active Site And Turnover Product At Exit Cavity
pdb|3NK1|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Serotonin
pdb|3NK2|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Dopamine
pdb|3NN6|X Chain X, Crystal Structure Of Inhibitor-Bound In Active Centre
6-Hydroxy-L- Nicotine Oxidase From Arthrobacter
Nicotinovorans
pdb|3NN0|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Nicotinamide
Length = 431
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 5/81 (6%)
Query: 424 GNEWFVRALAEDLP-IFYQRTVQSIRYGVDGVMVYAG-GQEFRGDMVLCTVPLGVLKKGT 481
G+ V A+++++P I Q V I D V V G F+ V+ P+ ++
Sbjct: 205 GSADLVDAMSQEIPEIRLQTVVTGIDQSGDVVNVTVKDGHAFQAHSVIVATPMNTWRR-- 262
Query: 482 IEFVPELPQRKKDAIQRLGYG 502
I F P LP+R++ I+ G+G
Sbjct: 263 IVFTPALPERRRSVIEE-GHG 282
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 20/29 (68%)
Query: 244 RQLISMGFKVVVLEGRERPGGRVKTRKMK 272
R L + G KV++LEG ER GGR +R+ +
Sbjct: 18 RDLTNAGKKVLLLEGGERLGGRAYSRESR 46
>pdb|3HYL|A Chain A, Crystal Structure Of Transketolase From Bacillus Anthracis
pdb|3HYL|B Chain B, Crystal Structure Of Transketolase From Bacillus Anthracis
pdb|3M49|A Chain A, Crystal Structure Of Transketolase Complexed With Thiamine
Diphosphate From Bacillus Anthracis
pdb|3M49|B Chain B, Crystal Structure Of Transketolase Complexed With Thiamine
Diphosphate From Bacillus Anthracis
Length = 690
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 11/89 (12%)
Query: 362 VALEAFRNVYKVAEDLQERMLLNWHLANLEYANA--SLMSNLSMAY-------WDQDDP- 411
VA E + N K +D+ E W+ EYA A L + L A W+Q+ P
Sbjct: 313 VAEEVYENFRKTVQDVGETAQAEWNTXLGEYAQAYPELANELQAAXNGLLPEGWEQNLPT 372
Query: 412 YEMGGDHCFIPGGNEWFVRALAEDLPIFY 440
YE+ G + + A+AE +P F+
Sbjct: 373 YEL-GSKAATRNSSGAVINAIAESVPSFF 400
>pdb|3KVE|A Chain A, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
pdb|3KVE|B Chain B, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
pdb|3KVE|C Chain C, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
pdb|3KVE|D Chain D, Structure Of Native L-Amino Acid Oxidase From Vipera
Ammodytes Ammodytes: Stabilization Of The Quaternary
Structure By Divalent Ions And Structural Changes In The
Dynamic Active Site
Length = 486
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 246 LISMGFKVVVLEGRERPGGRVKTRK 270
L G KV VLE ER GGRV+T +
Sbjct: 52 LAGAGHKVTVLEASERAGGRVRTHR 76
>pdb|3U6U|A Chain A, Crystal Structure Of The Putative Acetylglutamate Kinase
From Thermus Thermophilus
pdb|3U6U|C Chain C, Crystal Structure Of The Putative Acetylglutamate Kinase
From Thermus Thermophilus
Length = 269
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 20/40 (50%)
Query: 145 VVSKIGGTEQANYIVVRNHILSLWRSNVSVWLTREQALES 184
+V K+GG E NY V SLW+ V + L + E+
Sbjct: 2 IVVKVGGAEGINYEAVAKDAASLWKEGVKLLLVHGGSAET 41
>pdb|3EGO|A Chain A, Crystal Structure Of Probable 2-Dehydropantoate
2-Reductase Pane From Bacillus Subtilis
pdb|3EGO|B Chain B, Crystal Structure Of Probable 2-Dehydropantoate
2-Reductase Pane From Bacillus Subtilis
Length = 307
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%)
Query: 428 FVRALAEDLPIFYQRTVQSIRYGVDGVMVYAGGQEFRGD 466
+ +L D+ + +R Q+ +G+ +Y GG+EFR D
Sbjct: 19 YYLSLYHDVTVVTRRQEQAAAIQSEGIRLYKGGEEFRAD 57
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 0.136 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,670,825
Number of Sequences: 62578
Number of extensions: 773458
Number of successful extensions: 1863
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1714
Number of HSP's gapped (non-prelim): 98
length of query: 739
length of database: 14,973,337
effective HSP length: 106
effective length of query: 633
effective length of database: 8,340,069
effective search space: 5279263677
effective search space used: 5279263677
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: 55 (25.8 bits)