CB-aln-dp: Rozdiel medzi revíziami
Z MBI
| Riadok 2: | Riadok 2: | ||
==Proteínové sekvencie== | ==Proteínové sekvencie== | ||
| + | * http://genome.compbio.fmph.uniba.sk/data/magCapA5/proteins/MCA_00027_1.html | ||
| + | * https://www.uniprot.org/uniprot/P38222#sequences | ||
<pre> | <pre> | ||
>sp|P50520|VPS34_SCHPO Phosphatidylinositol 3-kinase vps34 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=vps34 PE=2 SV=2 | >sp|P50520|VPS34_SCHPO Phosphatidylinositol 3-kinase vps34 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=vps34 PE=2 SV=2 | ||
Aktuálna revízia z 15:24, 14. október 2021
Sekvencie a zarovnania k cvičeniu pre biológov: programy water a needle
Obsah
Proteínové sekvencie
- http://genome.compbio.fmph.uniba.sk/data/magCapA5/proteins/MCA_00027_1.html
- https://www.uniprot.org/uniprot/P38222#sequences
>sp|P50520|VPS34_SCHPO Phosphatidylinositol 3-kinase vps34 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=vps34 PE=2 SV=2 MDRLVFSYCPSSKVTARFLVKFCFIEYQDSQEPCICTIQLFSGNESGSLMQKCFVSKIPN KSLLPTELSKISTHEWLDFGVTVSELSLNAKFVVSAWKPSFNDEEVYEFVGCTTYRLFDE NNLLRQGLQKIPLQTSKEIKKYSPTSLELEQVKEINRLDGLLLKLQLGDVPSVNWLDDIS FGKIKDFRSKHMSLVTIPILYLDFLQFSFPVVFQRSYYPKSENRVYYSSFDLELNLDSPA ELKHRRLVRSQRNGPLDKDLKPNSKIRKELESILSYPPSEELSLEEKDLIWKFRFYLTRN KKAMTKFLKSVVWTDSSEVNQALSLLDSWTEIDIDDALELLSPSFVHPKVRAYAVSRLET ASNEELLLYLLQLVQALRYDNPISSDERFQPSPLALFLVNRAISSPSIGNDLYWYLVVEI EDEPVSKLFSSVMFLFQKELSKSVEGRLIRETLSAQAKFVEKLLRISKSVQSFRGTRLKK IEYLKVLLEDHKYHLLDFHALPLPLDPSVNIVGIIPDACTVFKSTMQPLRLLFKCQDGSK YPIIFKNGDDLRQDQLVIQILTLMDKLLKKEKLDLHLKPYRILATGPTHGAVQFVPSKTL ATILAEYHGSVLAYLRENNPDDGLNSANYGIDPVAMDNYVRSCAGYCVITYLLGVGDRHL DNLLITKDGHFFHADFGYILGRDPKLFSPAMKLSKEMVEGMGGYNSPFYQQFKSYCYTTF TALRKSSNLILNLFSLMVDANIPDIKFDKEKVVYKVKERFCLQMSESDAIKYFEQLINDS VSALFPQIIDRMHNLAQYMRS
>RKM3_YEAST MSVTFKDDVHRILKFVANCNGRFEDSKCDIRESPLGGLGVFAKTDIAEGESILTLNKSSI FSASNSSIANLLCDSSIDGMLALNIAFIYETTVFRNSSHWYPFLRTIRIRDDEGHLNLPP SFWHADAKRLLKGTSFDTLFDSLAPEEEIMEGFEIAVDLAHKWNDEFGLEIPKGFLDVSE ENHEEDYNLKLEKFISVAYTLSSRGFEIDAYHETALVPIADLFNHHVSDPDLKFVSLYDV CDKCGEPDMCKHLIAEEYLEAENLDKNMPKVASMETRVIDEDLIKSLENDLEKEYSNVTA NIEDDDGGIENPDECVDLVLKNDVAQGQEIFNSYGELSNVFLLARYGFTVPENQYDIVHL GPDFMKILKKEEKYQEKVKWWSQVGHGLFSAWYAQMRQEDEEDEDGQAKSDNLSDDIESE EEEEEEEGDDSLESWLSQLYIDSSGEPSPSTWALANLLTLTAVQWESLFSKKATPHISDS IVNEEKLPFLAKKDNPHSKKLLSNLLKEKQLPCIKGDNSSKITSATKSMLQNARTLVQSE HNILDRCLKRLS
Lokálne zarovnanie
########################################
# Program: water
# Rundate: Thu 14 Oct 2021 15:08:56
# Commandline: water
# -auto
# -stdout
# -asequence emboss_water-I20211014-150851-0938-20653107-p2m.asequence
# -bsequence emboss_water-I20211014-150851-0938-20653107-p2m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: MCA_00027_1
# 2: RKM3_YEAST
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 588
# Identity: 170/588 (28.9%)
# Similarity: 270/588 (45.9%)
# Gaps: 116/588 (19.7%)
# Score: 611.0
#
#
#=======================================
MCA_00027_1 29 IRESPLGGIGVFARKKIPKSSLILMVPKNVILSPSNCSISNLLDEADFDG 78
||||||||:||||:..|.:...||.:.|:.|.|.||.||:|||.::..||
RKM3_YEAST 30 IRESPLGGLGVFAKTDIAEGESILTLNKSSIFSASNSSIANLLCDSSIDG 79
MCA_00027_1 79 MLGLALAYMYERSLGPDSL-WYEFIQTI---DHDSLISENPRFWPPEDEE 124
||.|.:|::||.::..:|. ||.|::|| |.:..::..|.||..:.:.
RKM3_YEAST 80 MLALNIAFIYETTVFRNSSHWYPFLRTIRIRDDEGHLNLPPSFWHADAKR 129
MCA_00027_1 125 LLVGTELYYHTL---KVEDDDIAEVFKFDV------------------LP 153
||.||. :.|| ...:::|.|.|:..| |.
RKM3_YEAST 130 LLKGTS--FDTLFDSLAPEEEIMEGFEIAVDLAHKWNDEFGLEIPKGFLD 177
MCA_00027_1 154 FLERNHLFEGQPQYR-TLEYYRDCLVAVASRAFDVDVYHGLALVPGACLF 202
..|.|| :..|. .||.:......::||.|::|.||..||||.|.||
RKM3_YEAST 178 VSEENH----EEDYNLKLEKFISVAYTLSSRGFEIDAYHETALVPIADLF 223
MCA_00027_1 203 NHSI-DESVHFEVVSQVCPLCGSPDFCDHLANRLGNHSESDEEEEEEEVD 251
||.: |..:.|..:..||..||.||.|.||. ::|..|.|.:|
RKM3_YEAST 224 NHHVSDPDLKFVSLYDVCDKCGEPDMCKHLI--------AEEYLEAENLD 265
MCA_00027_1 252 ELNEDGFSSGFDYSDSESDSDGFEDIEEEEEEDGIIGSEETTIPISEDSD 301
:.... :.|.||.: |.||..
RKM3_YEAST 266 KNMPK------------------------------VASMETRV-IDEDLI 284
MCA_00027_1 302 KKTSNEQKSEEQEAEKYQYEEDDEDEADYDEPQDTCDIVTIKSVHKGNEV 351
|...|:.:.|..... ...::|:...:.|.:..|:|....|.:|.|:
RKM3_YEAST 285 KSLENDLEKEYSNVT----ANIEDDDGGIENPDECVDLVLKNDVAQGQEI 330
MCA_00027_1 352 FNTYGELSNHHLASRYGFAIWDNKYETVGLSPEIRQYI-SENNLMERQEW 400
||:||||||..|.:||||.:.:|:|:.|.|.|:..:.: .|....|:.:|
RKM3_YEAST 331 FNSYGELSNVFLLARYGFTVPENQYDIVHLGPDFMKILKKEEKYQEKVKW 380
MCA_00027_1 401 WSIYFYEALFGIRKDEWAEIEESEDEDDEG------------SEDSEEEN 438
|| :...|:....:|::.:.::||::| ||:.|||.
RKM3_YEAST 381 WS----QVGHGLFSAWYAQMRQEDEEDEDGQAKSDNLSDDIESEEEEEEE 426
MCA_00027_1 439 SIPPSPESISWEDEAYLTNSGAPSEGLSKLIRILSMSDSDFEALKSQFER 488
....|.| ||..:.|:.:||.||.....|..:|:::...:|:|
RKM3_YEAST 427 EGDDSLE--SWLSQLYIDSSGEPSPSTWALANLLTLTAVQWESL------ 468
MCA_00027_1 489 DVFTSKLLPS-STLVFNEKSLILLKALVNLRLQRYKDGMLTSSQI----- 532
|:.|..|. |..:.||:.|..|....|...::....:|...|:
RKM3_YEAST 469 --FSKKATPHISDSIVNEEKLPFLAKKDNPHSKKLLSNLLKEKQLPCIKG 516
MCA_00027_1 533 --KDLITKLSDNQKKNSRQILALTIKGTEKIVLEKSMQ 568
...||..:.:..:|:| |:..:|..:|::.::
RKM3_YEAST 517 DNSSKITSATKSMLQNAR-----TLVQSEHNILDRCLK 549
Globálne zarovnanie
########################################
# Program: needle
# Rundate: Thu 14 Oct 2021 15:13:34
# Commandline: needle
# -auto
# -stdout
# -asequence emboss_needle-I20211014-151332-0965-44565643-p2m.asequence
# -bsequence emboss_needle-I20211014-151332-0965-44565643-p2m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -endweight
# -endopen 10.0
# -endextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: MCA_00027_1
# 2: RKM3_YEAST
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 650
# Identity: 178/650 (27.4%)
# Similarity: 282/650 (43.4%)
# Gaps: 153/650 (23.5%)
# Score: 588.5
#
#
#=======================================
MCA_00027_1 1 MEDSL---MERYQSFV----GWMLDNKIQFSSLLTIRESPLGGIGVFARK 43
|..:. :.|...|| |...|:|.. ||||||||:||||:.
RKM3_YEAST 1 MSVTFKDDVHRILKFVANCNGRFEDSKCD------IRESPLGGLGVFAKT 44
MCA_00027_1 44 KIPKSSLILMVPKNVILSPSNCSISNLLDEADFDGMLGLALAYMYERSLG 93
.|.:...||.:.|:.|.|.||.||:|||.::..||||.|.:|::||.::.
RKM3_YEAST 45 DIAEGESILTLNKSSIFSASNSSIANLLCDSSIDGMLALNIAFIYETTVF 94
MCA_00027_1 94 PDSL-WYEFIQTI---DHDSLISENPRFWPPEDEELLVGTELYYHTL--- 136
.:|. ||.|::|| |.:..::..|.||..:.:.||.||. :.||
RKM3_YEAST 95 RNSSHWYPFLRTIRIRDDEGHLNLPPSFWHADAKRLLKGTS--FDTLFDS 142
MCA_00027_1 137 KVEDDDIAEVFKFDV------------------LPFLERNHLFEGQPQYR 168
...:::|.|.|:..| |...|.|| :..|.
RKM3_YEAST 143 LAPEEEIMEGFEIAVDLAHKWNDEFGLEIPKGFLDVSEENH----EEDYN 188
MCA_00027_1 169 -TLEYYRDCLVAVASRAFDVDVYHGLALVPGACLFNHSI-DESVHFEVVS 216
.||.:......::||.|::|.||..||||.|.||||.: |..:.|..:.
RKM3_YEAST 189 LKLEKFISVAYTLSSRGFEIDAYHETALVPIADLFNHHVSDPDLKFVSLY 238
MCA_00027_1 217 QVCPLCGSPDFCDHLANRLGNHSESDEEEEEEEVDELNEDGFSSGFDYSD 266
.||..||.||.|.||. ::|..|.|.:|:....
RKM3_YEAST 239 DVCDKCGEPDMCKHLI--------AEEYLEAENLDKNMPK---------- 270
MCA_00027_1 267 SESDSDGFEDIEEEEEEDGIIGSEETTIPISEDSDKKTSNEQKSEEQEAE 316
:.|.||.: |.||..|...|:.:.|.....
RKM3_YEAST 271 --------------------VASMETRV-IDEDLIKSLENDLEKEYSNVT 299
MCA_00027_1 317 KYQYEEDDEDEADYDEPQDTCDIVTIKSVHKGNEVFNTYGELSNHHLASR 366
...::|:...:.|.:..|:|....|.:|.|:||:||||||..|.:|
RKM3_YEAST 300 ----ANIEDDDGGIENPDECVDLVLKNDVAQGQEIFNSYGELSNVFLLAR 345
MCA_00027_1 367 YGFAIWDNKYETVGLSPEIRQYI-SENNLMERQEWWSIYFYEALFGIRKD 415
|||.:.:|:|:.|.|.|:..:.: .|....|:.:||| :...|:...
RKM3_YEAST 346 YGFTVPENQYDIVHLGPDFMKILKKEEKYQEKVKWWS----QVGHGLFSA 391
MCA_00027_1 416 EWAEIEESEDEDDEG------------SEDSEEENSIPPSPESISWEDEA 453
.:|::.:.::||::| ||:.|||.....|.| ||..:.
RKM3_YEAST 392 WYAQMRQEDEEDEDGQAKSDNLSDDIESEEEEEEEEGDDSLE--SWLSQL 439
MCA_00027_1 454 YLTNSGAPSEGLSKLIRILSMSDSDFEALKSQFERDVFTSKLLPS-STLV 502
|:.:||.||.....|..:|:::...:|:| |:.|..|. |..:
RKM3_YEAST 440 YIDSSGEPSPSTWALANLLTLTAVQWESL--------FSKKATPHISDSI 481
MCA_00027_1 503 FNEKSLILLKALVNLRLQRYKDGMLTSSQI-------KDLITKLSDNQKK 545
.||:.|..|....|...::....:|...|: ...||..:.:..:
RKM3_YEAST 482 VNEEKLPFLAKKDNPHSKKLLSNLLKEKQLPCIKGDNSSKITSATKSMLQ 531
MCA_00027_1 546 NSRQILALTIKGTEKIVLEKSMQWIAQLEKKKKRKPSNSNHKKPNSRKLK 595
|:| |:..:|..:|::.: ::|.
RKM3_YEAST 532 NAR-----TLVQSEHNILDRCL------------------------KRLS 552
Globálne zarovnanie s nulovou penaltou medzier na koncoch sekvencie
########################################
# Program: needle
# Rundate: Thu 14 Oct 2021 15:05:37
# Commandline: needle
# -auto
# -stdout
# -asequence emboss_needle-I20211014-151156-0154-17922699-p1m.asequence
# -bsequence emboss_needle-I20211014-151156-0154-17922699-p1m.bsequence
# -datafile EBLOSUM62
# -gapopen 10.0
# -gapextend 0.5
# -endopen 10.0
# -endextend 0.5
# -aformat3 pair
# -sprotein1
# -sprotein2
# Align_format: pair
# Report_file: stdout
########################################
#=======================================
#
# Aligned_sequences: 2
# 1: MCA_00027_1
# 2: RKM3_YEAST
# Matrix: EBLOSUM62
# Gap_penalty: 10.0
# Extend_penalty: 0.5
#
# Length: 651
# Identity: 177/651 (27.2%)
# Similarity: 282/651 (43.3%)
# Gaps: 155/651 (23.8%)
# Score: 608.0
#
#
#=======================================
MCA_00027_1 1 ----MEDSLMERYQSFV----GWMLDNKIQFSSLLTIRESPLGGIGVFAR 42
.:|. :.|...|| |...|:|.. ||||||||:||||:
RKM3_YEAST 1 MSVTFKDD-VHRILKFVANCNGRFEDSKCD------IRESPLGGLGVFAK 43
MCA_00027_1 43 KKIPKSSLILMVPKNVILSPSNCSISNLLDEADFDGMLGLALAYMYERSL 92
..|.:...||.:.|:.|.|.||.||:|||.::..||||.|.:|::||.::
RKM3_YEAST 44 TDIAEGESILTLNKSSIFSASNSSIANLLCDSSIDGMLALNIAFIYETTV 93
MCA_00027_1 93 GPDSL-WYEFIQTI---DHDSLISENPRFWPPEDEELLVGTELYYHTL-- 136
..:|. ||.|::|| |.:..::..|.||..:.:.||.||. :.||
RKM3_YEAST 94 FRNSSHWYPFLRTIRIRDDEGHLNLPPSFWHADAKRLLKGTS--FDTLFD 141
MCA_00027_1 137 -KVEDDDIAEVFKFDV------------------LPFLERNHLFEGQPQY 167
...:::|.|.|:..| |...|.|| :..|
RKM3_YEAST 142 SLAPEEEIMEGFEIAVDLAHKWNDEFGLEIPKGFLDVSEENH----EEDY 187
MCA_00027_1 168 R-TLEYYRDCLVAVASRAFDVDVYHGLALVPGACLFNHSI-DESVHFEVV 215
. .||.:......::||.|::|.||..||||.|.||||.: |..:.|..:
RKM3_YEAST 188 NLKLEKFISVAYTLSSRGFEIDAYHETALVPIADLFNHHVSDPDLKFVSL 237
MCA_00027_1 216 SQVCPLCGSPDFCDHLANRLGNHSESDEEEEEEEVDELNEDGFSSGFDYS 265
..||..||.||.|.||. ::|..|.|.:|:....
RKM3_YEAST 238 YDVCDKCGEPDMCKHLI--------AEEYLEAENLDKNMPK--------- 270
MCA_00027_1 266 DSESDSDGFEDIEEEEEEDGIIGSEETTIPISEDSDKKTSNEQKSEEQEA 315
:.|.||.: |.||..|...|:.:.|....
RKM3_YEAST 271 ---------------------VASMETRV-IDEDLIKSLENDLEKEYSNV 298
MCA_00027_1 316 EKYQYEEDDEDEADYDEPQDTCDIVTIKSVHKGNEVFNTYGELSNHHLAS 365
. ...::|:...:.|.:..|:|....|.:|.|:||:||||||..|.:
RKM3_YEAST 299 T----ANIEDDDGGIENPDECVDLVLKNDVAQGQEIFNSYGELSNVFLLA 344
MCA_00027_1 366 RYGFAIWDNKYETVGLSPEIRQYI-SENNLMERQEWWSIYFYEALFGIRK 414
||||.:.:|:|:.|.|.|:..:.: .|....|:.:||| :...|:..
RKM3_YEAST 345 RYGFTVPENQYDIVHLGPDFMKILKKEEKYQEKVKWWS----QVGHGLFS 390
MCA_00027_1 415 DEWAEIEESEDEDDEG------------SEDSEEENSIPPSPESISWEDE 452
..:|::.:.::||::| ||:.|||.....|.| ||..:
RKM3_YEAST 391 AWYAQMRQEDEEDEDGQAKSDNLSDDIESEEEEEEEEGDDSLE--SWLSQ 438
MCA_00027_1 453 AYLTNSGAPSEGLSKLIRILSMSDSDFEALKSQFERDVFTSKLLPS-STL 501
.|:.:||.||.....|..:|:::...:|:| |:.|..|. |..
RKM3_YEAST 439 LYIDSSGEPSPSTWALANLLTLTAVQWESL--------FSKKATPHISDS 480
MCA_00027_1 502 VFNEKSLILLKALVNLRLQRYKDGMLTSSQI-------KDLITKLSDNQK 544
:.||:.|..|....|...::....:|...|: ...||..:.:..
RKM3_YEAST 481 IVNEEKLPFLAKKDNPHSKKLLSNLLKEKQLPCIKGDNSSKITSATKSML 530
MCA_00027_1 545 KNSRQILALTIKGTEKIVLEKSMQWIAQLEKKKKRKPSNSNHKKPNSRKL 594
:|:| |:..:|..:|::.::.::
RKM3_YEAST 531 QNAR-----TLVQSEHNILDRCLKRLS----------------------- 552
MCA_00027_1 595 K 595
RKM3_YEAST 553 - 552
