RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7645
(418 letters)
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 670 bits (1731), Expect = 0.0
Identities = 282/439 (64%), Positives = 346/439 (78%), Gaps = 21/439 (4%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYK-KDMSVNPRALRRLRTAAERAKR 59
+FEV++TAGDTHLGGEDFDNRLV ++FKRK + KD+S N RALRRLRT ERAKR
Sbjct: 215 DGIFEVKATAGDTHLGGEDFDNRLVEFCVQDFKRKNRGKDLSSNQRALRRLRTQCERAKR 274
Query: 60 TLSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIH 119
TLSSST+A+IEID+L++GID+ ISRARFEELC D FR+TLQPVEK L+DA +DK ++H
Sbjct: 275 TLSSSTQATIEIDSLFEGIDYNVTISRARFEELCGDYFRNTLQPVEKVLKDAGMDKRSVH 334
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVL 179
+VVLVGGSTRIPKVQSL+++FF GK SINPDEAVAYGAAVQAAIL+G+QSS +QD+L
Sbjct: 335 EVVLVGGSTRIPKVQSLIKDFFNGKEPCKSINPDEAVAYGAAVQAAILTGEQSSQVQDLL 394
Query: 180 LVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKD 239
L+DVTPLSLG+ETAGGVMTKLIERNT IP K++Q FTTYADNQP V IQVFEGERAMTKD
Sbjct: 395 LLDVTPLSLGLETAGGVMTKLIERNTTIPTKKSQIFTTYADNQPGVLIQVFEGERAMTKD 454
Query: 240 NNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSK 299
NNLLG F L GIPPAPRGVP+I+VTFD+DANGILNV+A+D S+GKS ITI NDKGRLSK
Sbjct: 455 NNLLGKFHLDGIPPAPRGVPQIEVTFDIDANGILNVSAEDKSTGKSNKITITNDKGRLSK 514
Query: 300 EEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQAL--DNAGNKLTESEKSRCRE 357
+IDRM+N+AE+YK EDE +ER+ A+N LE Y +++K L + KL++S+K+ +
Sbjct: 515 ADIDRMVNEAEKYKAEDEANRERVEAKNGLENYCYSMKNTLQDEKVKGKLSDSDKATIEK 574
Query: 358 ECDATLKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKMHGGAGGASAGDMPRG------- 410
D L+WL+ N LA+KEE++ K ++++ C P+M+KM+ AGG G MP G
Sbjct: 575 AIDEALEWLEKNQLAEKEEFEHKQKEVESVCNPIMTKMYQAAGGGMPGGMPGGMPGGMPG 634
Query: 411 -----------GPTVEEVD 418
GPTVEEVD
Sbjct: 635 GAGPAGAGASSGPTVEEVD 653
>gnl|CDD|215656 pfam00012, HSP70, Hsp70 protein. Hsp70 chaperones help to fold
many proteins. Hsp70 assisted folding involves repeated
cycles of substrate binding and release. Hsp70 activity
is ATP dependent. Hsp70 proteins are made up of two
regions: the amino terminus is the ATPase domain and the
carboxyl terminus is the substrate binding region.
Length = 598
Score = 580 bits (1498), Expect = 0.0
Identities = 230/396 (58%), Positives = 292/396 (73%), Gaps = 11/396 (2%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV +T GDTHLGGEDFDNRLV H EEFK+KY D+S +PRAL+RLR AAE+AK LSS
Sbjct: 210 FEVLATNGDTHLGGEDFDNRLVDHFVEEFKKKYGIDLSKDPRALQRLREAAEKAKIELSS 269
Query: 64 -STEASIEIDALY-DGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDV 121
TE ++ DG D ++RA+FEELC+DLF TL+PVEKAL+DAKL KS I +V
Sbjct: 270 NQTEINLPFITAMADGKDVSGTLTRAKFEELCADLFERTLEPVEKALKDAKLSKSEIDEV 329
Query: 122 VLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVLLV 181
VLVGGSTRIP VQ L++ FF GK + +NPDEAVA GAAVQA +LSG ++DVLL+
Sbjct: 330 VLVGGSTRIPAVQELVKEFF-GKEPSKGVNPDEAVAIGAAVQAGVLSGTF--DVKDVLLL 386
Query: 182 DVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKDNN 241
DVTPLSLGIET GGVMTKLI RNT IP K++Q F+T ADNQ AV IQV++GER M DN
Sbjct: 387 DVTPLSLGIETLGGVMTKLIPRNTTIPTKKSQIFSTAADNQTAVEIQVYQGEREMAPDNK 446
Query: 242 LLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSKEE 301
LLG+F+L GIPPAPRGVP+I+VTFD+DANGIL V+AKD +GK Q ITI G LS +E
Sbjct: 447 LLGSFELDGIPPAPRGVPQIEVTFDIDANGILTVSAKDKGTGKEQKITITASSG-LSDDE 505
Query: 302 IDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREECDA 361
I+RM+ DAE Y ED+++KERI A+N E YV++++++L G+KL E++K ++ +
Sbjct: 506 IERMVKDAEEYAAEDKKRKERIEAKNEAEEYVYSLEKSLKEEGDKLPEADK----KKVEE 561
Query: 362 TLKWLDNNTL-ADKEEYQDKLQQLQKSCMPLMSKMH 396
++WL DKEE + K ++LQK P+ +M+
Sbjct: 562 AIEWLKEELEGEDKEEIEAKTEELQKVVQPIGERMY 597
>gnl|CDD|234715 PRK00290, dnaK, molecular chaperone DnaK; Provisional.
Length = 627
Score = 552 bits (1425), Expect = 0.0
Identities = 206/425 (48%), Positives = 276/425 (64%), Gaps = 19/425 (4%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV ST GDTHLGG+DFD R++ +LA+EFK++ D+ + AL+RL+ AAE+AK LSS
Sbjct: 209 FEVLSTNGDTHLGGDDFDQRIIDYLADEFKKENGIDLRKDKMALQRLKEAAEKAKIELSS 268
Query: 64 STEASIE---IDALYDG-IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIH 119
+ + I I A G K++RA+FEEL DL T++P ++AL+DA L S I
Sbjct: 269 AQQTEINLPFITADASGPKHLEIKLTRAKFEELTEDLVERTIEPCKQALKDAGLSVSDID 328
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVL 179
+V+LVGGSTR+P VQ L++ FF GK N +NPDE VA GAA+Q +L+GD ++DVL
Sbjct: 329 EVILVGGSTRMPAVQELVKEFF-GKEPNKGVNPDEVVAIGAAIQGGVLAGD----VKDVL 383
Query: 180 LVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKD 239
L+DVTPLSLGIET GGVMTKLIERNT IP K++Q F+T ADNQPAVTI V +GER M D
Sbjct: 384 LLDVTPLSLGIETLGGVMTKLIERNTTIPTKKSQVFSTAADNQPAVTIHVLQGEREMAAD 443
Query: 240 NNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSK 299
N LG F+LTGIPPAPRGVP+I+VTFD+DANGI++V+AKD +GK Q+ITI G LS
Sbjct: 444 NKSLGRFNLTGIPPAPRGVPQIEVTFDIDANGIVHVSAKDKGTGKEQSITITASSG-LSD 502
Query: 300 EEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREEC 359
EEI+RM+ DAE +ED+++KE + ARN ++ ++ ++ L G+K+ EK +
Sbjct: 503 EEIERMVKDAEANAEEDKKRKELVEARNQADSLIYQTEKTLKELGDKVPADEKEKIEAAI 562
Query: 360 DATLKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKMHGGAGGASAGDMPRGG------PT 413
+ L DKE + K ++L ++ L M+ A A
Sbjct: 563 KELKEALKGE---DKEAIKAKTEELTQASQKLGEAMYQQAQAAQGAAGAAAKDDDVVDAE 619
Query: 414 VEEVD 418
EEV
Sbjct: 620 FEEVK 624
>gnl|CDD|233830 TIGR02350, prok_dnaK, chaperone protein DnaK. Members of this
family are the chaperone DnaK, of the DnaK-DnaJ-GrpE
chaperone system. All members of the seed alignment were
taken from completely sequenced bacterial or archaeal
genomes and (except for Mycoplasma sequence) found
clustered with other genes of this systems. This model
excludes DnaK homologs that are not DnaK itself, such as
the heat shock cognate protein HscA (TIGR01991).
However, it is not designed to distinguish among DnaK
paralogs in eukaryotes. Note that a number of dnaK genes
have shadow ORFs in the same reverse (relative to dnaK)
reading frame, a few of which have been assigned
glutamate dehydrogenase activity. The significance of
this observation is unclear; lengths of such shadow ORFs
are highly variable as if the presumptive protein
product is not conserved [Protein fate, Protein folding
and stabilization].
Length = 595
Score = 495 bits (1277), Expect = e-173
Identities = 209/396 (52%), Positives = 272/396 (68%), Gaps = 13/396 (3%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV STAGDTHLGG+DFD R++ LA+EFK++ D+S + AL+RL+ AAE+AK LSS
Sbjct: 207 FEVLSTAGDTHLGGDDFDQRIIDWLADEFKKEEGIDLSKDKMALQRLKEAAEKAKIELSS 266
Query: 64 STEASIE---IDALYDG-IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIH 119
I I A G ++RA+FEEL +DL T +PV +AL+DA L S I
Sbjct: 267 VLSTEINLPFITADASGPKHLEMTLTRAKFEELTADLVERTKEPVRQALKDAGLSASDID 326
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVL 179
+V+LVGGSTRIP VQ L+++FF GK N S+NPDE VA GAA+Q +L GD ++DVL
Sbjct: 327 EVILVGGSTRIPAVQELVKDFF-GKEPNKSVNPDEVVAIGAAIQGGVLKGD----VKDVL 381
Query: 180 LVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKD 239
L+DVTPLSLGIET GGVMTKLIERNT IP K++Q F+T ADNQPAV I V +GER M D
Sbjct: 382 LLDVTPLSLGIETLGGVMTKLIERNTTIPTKKSQVFSTAADNQPAVDIHVLQGERPMAAD 441
Query: 240 NNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSK 299
N LG F+LTGIPPAPRGVP+I+VTFD+DANGIL+V+AKD +GK Q+ITI G LS+
Sbjct: 442 NKSLGRFELTGIPPAPRGVPQIEVTFDIDANGILHVSAKDKGTGKEQSITITASSG-LSE 500
Query: 300 EEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREEC 359
EEI+RM+ +AE +ED+++KE I ARNN ++ + ++ L AG+KL EK + +
Sbjct: 501 EEIERMVKEAEANAEEDKKRKEEIEARNNADSLAYQAEKTLKEAGDKLPAEEKEKIEKAV 560
Query: 360 DATLKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKM 395
+ L D EE + K ++LQ++ L M
Sbjct: 561 AELKEALKGE---DVEEIKAKTEELQQALQKLAEAM 593
>gnl|CDD|223520 COG0443, DnaK, Molecular chaperone [Posttranslational modification,
protein turnover, chaperones].
Length = 579
Score = 446 bits (1148), Expect = e-153
Identities = 208/393 (52%), Positives = 273/393 (69%), Gaps = 11/393 (2%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+FEV +T GD HLGG+DFDN L+ +L EFK K D+ + AL+RLR AAE+AK LS
Sbjct: 195 VFEVLATGGDNHLGGDDFDNALIDYLVMEFKGKGGIDLRSDKAALQRLREAAEKAKIELS 254
Query: 63 SSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
S+T+ SI + ++ ID +++RA+FEEL DL T++PVE+AL+DA L+KS I V+
Sbjct: 255 SATQTSINLPSIGGDIDLLKELTRAKFEELILDLLERTIEPVEQALKDAGLEKSDIDLVI 314
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVLLVD 182
LVGGSTRIP VQ L++ FF GK SINPDEAVA GAA+QAA+LSG+ DVLL+D
Sbjct: 315 LVGGSTRIPAVQELVKEFF-GKEPEKSINPDEAVALGAAIQAAVLSGEVP----DVLLLD 369
Query: 183 VTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKDNNL 242
V PLSLGIET GGV T +IERNT IP K++Q F+T AD Q AV I VF+GER M DN
Sbjct: 370 VIPLSLGIETLGGVRTPIIERNTTIPVKKSQEFSTAADGQTAVAIHVFQGEREMAADNKS 429
Query: 243 LGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSKEEI 302
LG F+L GIPPAPRGVP+I+VTFD+DANGILNVTAKD +GK Q+ITIK G LS EEI
Sbjct: 430 LGRFELDGIPPAPRGVPQIEVTFDIDANGILNVTAKDLGTGKEQSITIKASSG-LSDEEI 488
Query: 303 DRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREECDAT 362
+RM+ DAE D++ +E + ARN E+ ++++++AL K++E EK + E
Sbjct: 489 ERMVEDAEANAALDKKFRELVEARNEAESLIYSLEKALKEIV-KVSEEEKEKIEEAITDL 547
Query: 363 LKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKM 395
+ L+ +KEE + K+++LQ+ L K
Sbjct: 548 EEALEG----EKEEIKAKIEELQEVTQKLAEKK 576
>gnl|CDD|214360 CHL00094, dnaK, heat shock protein 70.
Length = 621
Score = 418 bits (1077), Expect = e-142
Identities = 197/392 (50%), Positives = 269/392 (68%), Gaps = 15/392 (3%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+FEV ST+GDTHLGG+DFD ++V+ L +EFK+K D+S + +AL+RL AAE+AK LS
Sbjct: 210 VFEVLSTSGDTHLGGDDFDKKIVNWLIKEFKKKEGIDLSKDRQALQRLTEAAEKAKIELS 269
Query: 63 SSTEASIE---IDALYDG-IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAI 118
+ T+ I I A G ++RA+FEELCSDL PVE AL+DAKLDKS I
Sbjct: 270 NLTQTEINLPFITATQTGPKHIEKTLTRAKFEELCSDLINRCRIPVENALKDAKLDKSDI 329
Query: 119 HDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDV 178
+VVLVGGSTRIP +Q L++ GK N S+NPDE VA GAAVQA +L+G+ ++D+
Sbjct: 330 DEVVLVGGSTRIPAIQELVKKLL-GKKPNQSVNPDEVVAIGAAVQAGVLAGE----VKDI 384
Query: 179 LLVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTK 238
LL+DVTPLSLG+ET GGVMTK+I RNT IP K+++ F+T DNQ V I V +GER + K
Sbjct: 385 LLLDVTPLSLGVETLGGVMTKIIPRNTTIPTKKSEVFSTAVDNQTNVEIHVLQGERELAK 444
Query: 239 DNNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLS 298
DN LGTF L GIPPAPRGVP+I+VTFD+DANGIL+VTAKD +GK Q+ITI+ L
Sbjct: 445 DNKSLGTFRLDGIPPAPRGVPQIEVTFDIDANGILSVTAKDKGTGKEQSITIQG-ASTLP 503
Query: 299 KEEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREE 358
K+E++RM+ +AE+ ED+ ++E+I +N E+ + ++ L +K++E +K E+
Sbjct: 504 KDEVERMVKEAEKNAAEDKEKREKIDLKNQAESLCYQAEKQLKELKDKISEEKK----EK 559
Query: 359 CDATLKWLDNNTLADK-EEYQDKLQQLQKSCM 389
+ +K L D E + L++LQK+ M
Sbjct: 560 IENLIKKLRQALQNDNYESIKSLLEELQKALM 591
>gnl|CDD|240403 PTZ00400, PTZ00400, DnaK-type molecular chaperone; Provisional.
Length = 663
Score = 406 bits (1045), Expect = e-137
Identities = 192/420 (45%), Positives = 278/420 (66%), Gaps = 13/420 (3%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
G +FEV++T G+T LGGEDFD R++++L EFK++ D+ + AL+RLR AAE AK
Sbjct: 247 GGVFEVKATNGNTSLGGEDFDQRILNYLIAEFKKQQGIDLKKDKLALQRLREAAETAKIE 306
Query: 61 LSSSTEASIE---IDALYDGID-FYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKS 116
LSS T+ I I A G K+SRA+ EEL DL + T++P EK ++DA + K
Sbjct: 307 LSSKTQTEINLPFITADQSGPKHLQIKLSRAKLEELTHDLLKKTIEPCEKCIKDAGVKKD 366
Query: 117 AIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQ 176
++DV+LVGG TR+PKV ++ F GK + +NPDEAVA GAA+QA +L G+ I+
Sbjct: 367 ELNDVILVGGMTRMPKVSETVKKIF-GKEPSKGVNPDEAVAMGAAIQAGVLKGE----IK 421
Query: 177 DVLLVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAM 236
D+LL+DVTPLSLGIET GGV T+LI RNT IP K++Q F+T ADNQ V I+VF+GER M
Sbjct: 422 DLLLLDVTPLSLGIETLGGVFTRLINRNTTIPTKKSQVFSTAADNQTQVGIKVFQGEREM 481
Query: 237 TKDNNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGR 296
DN LLG FDL GIPPAPRGVP+I+VTFD+DANGI+N++A D S+GK Q ITI++ G
Sbjct: 482 AADNKLLGQFDLVGIPPAPRGVPQIEVTFDVDANGIMNISAVDKSTGKKQEITIQSSGG- 540
Query: 297 LSKEEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCR 356
LS EEI++M+ +AE YK++DE++KE + A+N E +++V++ L + +K+++++K +
Sbjct: 541 LSDEEIEKMVKEAEEYKEQDEKKKELVDAKNEAETLIYSVEKQLSDLKDKISDADKDELK 600
Query: 357 EECDATLKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKMHGGAGGASAGDMPRGGPTVEE 416
++ L + D + +DK +QLQ++ + + + + E
Sbjct: 601 QKITKLRSTLSSE---DVDSIKDKTKQLQEASWKISQQAYKQGNSDNQQSEQSTNSEESE 657
>gnl|CDD|184039 PRK13411, PRK13411, molecular chaperone DnaK; Provisional.
Length = 653
Score = 403 bits (1038), Expect = e-136
Identities = 185/408 (45%), Positives = 269/408 (65%), Gaps = 10/408 (2%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV++TAG+ HLGG+DFDN +V L E F+++ D+S + AL+RLR AAE+AK LSS
Sbjct: 210 FEVKATAGNNHLGGDDFDNCIVDWLVENFQQQEGIDLSQDKMALQRLREAAEKAKIELSS 269
Query: 64 STEASIE---IDALYDGID-FYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIH 119
SI I A G +++RA+FEEL DL +T++P+++AL+DA L I
Sbjct: 270 MLTTSINLPFITADETGPKHLEMELTRAKFEELTKDLVEATIEPMQQALKDAGLKPEDID 329
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVL 179
V+LVGGSTRIP VQ +Q FF GK + S+NPDEAVA GAA+QA +L G+ ++D+L
Sbjct: 330 RVILVGGSTRIPAVQEAIQKFFGGKQPDRSVNPDEAVALGAAIQAGVLGGE----VKDLL 385
Query: 180 LVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKD 239
L+DVTPLSLGIET G V TK+IERNT IP ++Q F+T D Q +V I V +GERAM KD
Sbjct: 386 LLDVTPLSLGIETLGEVFTKIIERNTTIPTSKSQVFSTATDGQTSVEIHVLQGERAMAKD 445
Query: 240 NNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSK 299
N LG F LTGIPPAPRGVP+I+V+F++D NGIL V+A+D +G+ Q+I I N G LS
Sbjct: 446 NKSLGKFLLTGIPPAPRGVPQIEVSFEIDVNGILKVSAQDQGTGREQSIRITN-TGGLSS 504
Query: 300 EEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREEC 359
EI+RM +AE+Y +ED R+K+ I +N ++ +++ + L G ++E K R ++
Sbjct: 505 NEIERMRQEAEKYAEEDRRRKQLIELKNQADSLLYSYESTLKENGELISEELKQRAEQKV 564
Query: 360 DATLKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKMHGGAGGASAGDM 407
+ L + + EE + +L++ Q++ + + ++++ G + +
Sbjct: 565 EQLEAALTDPNI-SLEELKQQLEEFQQALLAIGAEVYQQGGSQTTDTV 611
>gnl|CDD|215618 PLN03184, PLN03184, chloroplast Hsp70; Provisional.
Length = 673
Score = 380 bits (978), Expect = e-126
Identities = 192/416 (46%), Positives = 270/416 (64%), Gaps = 19/416 (4%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+FEV ST+GDTHLGG+DFD R+V LA FK+ D+ + +AL+RL AAE+AK LS
Sbjct: 247 VFEVLSTSGDTHLGGDDFDKRIVDWLASNFKKDEGIDLLKDKQALQRLTEAAEKAKIELS 306
Query: 63 SSTEASIE---IDALYDG---IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKS 116
S T+ SI I A DG ID T ++RA+FEELCSDL PVE AL+DAKL
Sbjct: 307 SLTQTSISLPFITATADGPKHID--TTLTRAKFEELCSDLLDRCKTPVENALRDAKLSFK 364
Query: 117 AIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQ 176
I +V+LVGGSTRIP VQ L++ GK N+++NPDE VA GAAVQA +L+G+ S
Sbjct: 365 DIDEVILVGGSTRIPAVQELVKKL-TGKDPNVTVNPDEVVALGAAVQAGVLAGEVS---- 419
Query: 177 DVLLVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAM 236
D++L+DVTPLSLG+ET GGVMTK+I RNT +P +++ F+T AD Q +V I V +GER
Sbjct: 420 DIVLLDVTPLSLGLETLGGVMTKIIPRNTTLPTSKSEVFSTAADGQTSVEINVLQGEREF 479
Query: 237 TKDNNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGR 296
+DN LG+F L GIPPAPRGVP+I+V FD+DANGIL+V+A D +GK Q+ITI
Sbjct: 480 VRDNKSLGSFRLDGIPPAPRGVPQIEVKFDIDANGILSVSATDKGTGKKQDITITG-AST 538
Query: 297 LSKEEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCR 356
L K+E++RM+ +AE++ ED+ +++ + +N ++ V+ ++ L G+K+ K
Sbjct: 539 LPKDEVERMVQEAEKFAKEDKEKRDAVDTKNQADSVVYQTEKQLKELGDKVPADVK---- 594
Query: 357 EECDATLKWLDNNTLADK-EEYQDKLQQLQKSCMPLMSKMHGGAGGASAGDMPRGG 411
E+ +A LK L + + ++ +D + L + M + ++ G AG P G
Sbjct: 595 EKVEAKLKELKDAIASGSTQKMKDAMAALNQEVMQIGQSLYNQPGAGGAGPAPGGE 650
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 371 bits (954), Expect = e-123
Identities = 176/387 (45%), Positives = 246/387 (63%), Gaps = 14/387 (3%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS- 62
FEV++T+GDT LGG DFD R+V LAE+F K D+ + +AL+RL AAE+AK LS
Sbjct: 211 FEVKATSGDTQLGGNDFDKRIVDWLAEQFLEKEGIDLRRDRQALQRLTEAAEKAKIELSG 270
Query: 63 -SSTEASIE-IDALYDG-IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIH 119
S T+ S+ I A DG T++ R +FE LC DL L+PV++AL+DA L I
Sbjct: 271 VSVTDISLPFITATEDGPKHIETRLDRKQFESLCGDLLDRLLRPVKRALKDAGLSPEDID 330
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVL 179
+VVLVGGSTR+P VQ L++ + N ++NPDE VA GAA+QA IL+G+ ++D+L
Sbjct: 331 EVVLVGGSTRMPMVQQLVRTLI-PREPNQNVNPDEVVAVGAAIQAGILAGE----LKDLL 385
Query: 180 LVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKD 239
L+DVTPLSLG+ET GGVM KLI RNT IP +++ F+T +NQ +V I V++GER M D
Sbjct: 386 LLDVTPLSLGLETIGGVMKKLIPRNTTIPVRRSDVFSTSENNQSSVEIHVWQGEREMASD 445
Query: 240 NNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSK 299
N LG F L+GIPPAPRGVP++ V FD+DANGIL V+A D ++G+ Q++TI+ LS+
Sbjct: 446 NKSLGRFKLSGIPPAPRGVPQVQVAFDIDANGILQVSATDRTTGREQSVTIQG-ASTLSE 504
Query: 300 EEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNA----GNKLTESEKSRC 355
+E++RMI +AE DED R++ERI RN + ++ L +A G E ++
Sbjct: 505 QEVNRMIQEAEAKADEDRRRRERIEKRNRALTLIAQAERRLRDAALEFGPYFAERQRRAV 564
Query: 356 REECDATLKWLDNNTLADKEEYQDKLQ 382
L+ + + + LQ
Sbjct: 565 ESAMRDVQDSLEQDDDRELDLAVADLQ 591
>gnl|CDD|212675 cd10233, HSPA1-2_6-8-like_NBD, Nucleotide-binding domain of
HSPA1-A, -B, -L, HSPA-2, -6, -7, -8, and similar
proteins. This subfamily includes human HSPA1A (70-kDa
heat shock protein 1A, also known as HSP72; HSPA1;
HSP70I; HSPA1B; HSP70-1; HSP70-1A), HSPA1B (70-kDa heat
shock protein 1B, also known as HSPA1A; HSP70-2;
HSP70-1B), and HSPA1L (70-kDa heat shock protein 1-like,
also known as HSP70T; hum70t; HSP70-1L; HSP70-HOM). The
genes for these three HSPA1 proteins map in close
proximity on the major histocompatibility complex (MHC)
class III region on chromosome 6, 6p21.3. This subfamily
also includes human HSPA8 (heat shock 70kDa protein 8,
also known as LAP1; HSC54; HSC70; HSC71; HSP71; HSP73;
NIP71; HSPA10; the HSPA8 gene maps to 11q24.1), human
HSPA2 (70-kDa heat shock protein 2, also known as
HSP70-2; HSP70-3, the HSPA2 gene maps to 14q24.1), human
HSPA6 (also known as heat shock 70kDa protein 6
(HSP70B') gi 94717614, the HSPA6 gene maps to 1q23.3),
human HSPA7 (heat shock 70kDa protein 7 , also known as
HSP70B; the HSPA7 gene maps to 1q23.3) and Saccharmoyces
cerevisiae Stress-Seventy subfamily B/Ssb1p. This
subfamily belongs to the heat shock protein 70 (HSP70)
family of chaperones that assist in protein folding and
assembly and can direct incompetent "client" proteins
towards degradation. Typically, HSP70s have a
nucleotide-binding domain (NBD) and a substrate-binding
domain (SBD). The nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is regulated by various co-chaperones: J-domain
proteins and nucleotide exchange factors (NEFs).
Associations of polymorphisms within the MHC-III HSP70
gene locus with longevity, systemic lupus erythematosus,
Meniere's disease, noise-induced hearing loss,
high-altitude pulmonary edema, and coronary heart
disease, have been found. HSPA2 is involved in cancer
cell survival, is required for maturation of male
gametophytes, and is linked to male infertility. The
induction of HSPA6 is a biomarker of cellular stress.
HSPA8 participates in the folding and trafficking of
client proteins to different subcellular compartments,
and in the signal transduction and apoptosis process; it
has been shown to protect cardiomyocytes against
oxidative stress partly through an interaction with
alpha-enolase. S. cerevisiae Ssb1p, is part of the
ribosome-associated complex (RAC), it acts as a
chaperone for nascent polypeptides, and is important for
translation fidelity; Ssb1p is also a [PSI+]
prion-curing factor.
Length = 376
Score = 346 bits (890), Expect = e-117
Identities = 136/168 (80%), Positives = 153/168 (91%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
+FEV++TAGDTHLGGEDFDNRLV+H +EFKRK+KKD+S N RALRRLRTA ERAKRT
Sbjct: 209 DGIFEVKATAGDTHLGGEDFDNRLVNHFVQEFKRKHKKDISGNKRALRRLRTACERAKRT 268
Query: 61 LSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHD 120
LSSST+ASIEID+L++GIDFYT I+RARFEELC+DLFR TL+PVEK L+DAKLDKS IHD
Sbjct: 269 LSSSTQASIEIDSLFEGIDFYTSITRARFEELCADLFRGTLEPVEKVLRDAKLDKSQIHD 328
Query: 121 VVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILS 168
+VLVGGSTRIPKVQ LLQ+FF GK LN SINPDEAVAYGAAVQAAILS
Sbjct: 329 IVLVGGSTRIPKVQKLLQDFFNGKELNKSINPDEAVAYGAAVQAAILS 376
>gnl|CDD|140213 PTZ00186, PTZ00186, heat shock 70 kDa precursor protein;
Provisional.
Length = 657
Score = 327 bits (838), Expect = e-106
Identities = 183/410 (44%), Positives = 264/410 (64%), Gaps = 12/410 (2%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
G +FEV++T GDTHLGGEDFD L ++ EEF++ D+S AL+R+R AAE+AK
Sbjct: 233 GGVFEVKATNGDTHLGGEDFDLALSDYILEEFRKTSGIDLSKERMALQRVREAAEKAKCE 292
Query: 61 LSSSTEASIE---IDALYDGID-FYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKS 116
LSS+ E + I A DG ISR++FE + L ++ P ++ ++DA ++
Sbjct: 293 LSSAMETEVNLPFITANADGAQHIQMHISRSKFEGITQRLIERSIAPCKQCMKDAGVELK 352
Query: 117 AIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQ 176
I+DVVLVGG TR+PKV ++ FF K +NPDEAVA GAA +L GD ++
Sbjct: 353 EINDVVLVGGMTRMPKVVEEVKKFF-QKDPFRGVNPDEAVALGAATLGGVLRGD----VK 407
Query: 177 DVLLVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAM 236
++L+DVTPLSLGIET GGV T++I +NT IP K++QTF+T ADNQ V I+VF+GER M
Sbjct: 408 GLVLLDVTPLSLGIETLGGVFTRMIPKNTTIPTKKSQTFSTAADNQTQVGIKVFQGEREM 467
Query: 237 TKDNNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGR 296
DN ++G FDL GIPPAPRGVP+I+VTFD+DANGI +VTAKD ++GK+QNITI + G
Sbjct: 468 AADNQMMGQFDLVGIPPAPRGVPQIEVTFDIDANGICHVTAKDKATGKTQNITITANGG- 526
Query: 297 LSKEEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCR 356
LSKE+I++MI D+E++ + D ++E + RNN E + ++ L ++++EK +
Sbjct: 527 LSKEQIEQMIRDSEQHAEADRVKRELVEVRNNAETQLTTAERQL-GEWKYVSDAEKENVK 585
Query: 357 EECDATLKWLDNNTLADKEEYQDKLQQLQKSCMPLMSKMHGGAGGASAGD 406
K ++N +A K++ +LQK+ M + A A++G
Sbjct: 586 TLVAELRKAMENPNVA-KDDLAAATDKLQKAVMECGRTEYQQAAAANSGS 634
>gnl|CDD|235360 PRK05183, hscA, chaperone protein HscA; Provisional.
Length = 616
Score = 316 bits (812), Expect = e-102
Identities = 140/354 (39%), Positives = 213/354 (60%), Gaps = 22/354 (6%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV +T GD+ LGG+DFD+ L + E+ + D P R L AA AK LS
Sbjct: 225 FEVLATGGDSALGGDDFDHLLADWILEQAGLSPRLD----PEDQRLLLDAARAAKEALSD 280
Query: 64 STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVL 123
+ + + AL+ G I+R +F L + L + TL +AL+DA ++ + +VV+
Sbjct: 281 ADSVEVSV-ALWQGE-----ITREQFNALIAPLVKRTLLACRRALRDAGVEADEVKEVVM 334
Query: 124 VGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVLLVDV 183
VGGSTR+P V+ + FF G++ SI+PD+ VA GAA+QA IL+G++ + D+LL+DV
Sbjct: 335 VGGSTRVPLVREAVGEFF-GRTPLTSIDPDKVVAIGAAIQADILAGNKPDS--DMLLLDV 391
Query: 184 TPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKDNNLL 243
PLSLG+ET GG++ K+I RNT IP + Q FTT+ D Q A+ I V +GER + D L
Sbjct: 392 IPLSLGLETMGGLVEKIIPRNTTIPVARAQEFTTFKDGQTAMAIHVVQGERELVADCRSL 451
Query: 244 GTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSKEEID 303
F+L GIPP G +I VTF +DA+G+L+VTA + S+G +I +K G L+ +EI
Sbjct: 452 ARFELRGIPPMAAGAARIRVTFQVDADGLLSVTAMEKSTGVEASIQVKPSYG-LTDDEIA 510
Query: 304 RMINDAERYKDEDERQK----ERISARNNLEAYVFNVKQALDNAGNKLTESEKS 353
RM+ D+ + +ED + + +++ A LEA ++ AL G+ L+ +E++
Sbjct: 511 RMLKDSMSHAEEDMQARALAEQKVEAERVLEA----LQAALAADGDLLSAAERA 560
>gnl|CDD|233673 TIGR01991, HscA, Fe-S protein assembly chaperone HscA. The Heat
Shock Cognate proteins HscA and HscB act together as
chaperones. HscA resembles DnaK but belongs in a
separate clade. The apparent function is to aid assembly
of iron-sulfur cluster proteins. Homologs from Buchnera
and Wolbachia are clearly in the same clade but are
highly derived and score lower than some examples of
DnaK [Protein fate, Protein folding and stabilization].
Length = 599
Score = 314 bits (807), Expect = e-102
Identities = 150/357 (42%), Positives = 213/357 (59%), Gaps = 24/357 (6%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKK---DMSVNPRALRRLRTAAERAKR 59
+FEV +T GD+ LGG+DFD+ L + K+ +NP R L AA AK
Sbjct: 204 VFEVLATGGDSALGGDDFDHALAKWI-------LKQLGISADLNPEDQRLLLQAARAAKE 256
Query: 60 TLSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIH 119
L+ S+E+D DG DF K++R FE L L + TL +AL+DA L I
Sbjct: 257 ALT--DAESVEVDFTLDGKDFKGKLTRDEFEALIQPLVQKTLSICRRALRDAGLSVEEIK 314
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVL 179
VVLVGGSTR+P V+ + F G+ I+PD+ VA GAA+QA +L+G++ D+L
Sbjct: 315 GVVLVGGSTRMPLVRRAVAELF-GQEPLTDIDPDQVVALGAAIQADLLAGNRIG--NDLL 371
Query: 180 LVDVTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKD 239
L+DVTPLSLGIET GG++ K+I RNT IP + Q FTTY D Q A+ I V +GER + +D
Sbjct: 372 LLDVTPLSLGIETMGGLVEKIIPRNTPIPVARAQEFTTYKDGQTAMVIHVVQGERELVED 431
Query: 240 NNLLGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSK 299
L F+L GIPP G +I VTF +DA+G+L V+A++ S+G Q+I +K G LS
Sbjct: 432 CRSLARFELRGIPPMVAGAARIRVTFQVDADGLLTVSAQEQSTGVEQSIQVKPSYG-LSD 490
Query: 300 EEIDRMINDAERYKDED----ERQKERISARNNLEAYVFNVKQALDNAGNKLTESEK 352
EEI+RM+ D+ ++ +ED ++++ A LEA ++ AL G+ L+E E+
Sbjct: 491 EEIERMLKDSFKHAEEDMYARALAEQKVEAERILEA----LQAALAADGDLLSEDER 543
>gnl|CDD|212681 cd10241, HSPA5-like_NBD, Nucleotide-binding domain of human HSPA5
and similar proteins. This subfamily includes human
HSPA5 (also known as 70-kDa heat shock protein 5,
glucose-regulated protein 78/GRP78, and immunoglobulin
heavy chain-binding protein/BIP, MIF2; the gene encoding
HSPA5 maps to 9q33.3.), Sacchaormyces cerevisiae Kar2p
(also known as Grp78p), and related proteins. This
subfamily belongs to the heat shock protein 70 (HSP70)
family of chaperones that assist in protein folding and
assembly and can direct incompetent "client" proteins
towards degradation. HSPA5 and Kar2p are chaperones of
the endoplasmic reticulum (ER). Typically, HSP70s have a
nucleotide-binding domain (NBD) and a substrate-binding
domain (SBD). The nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is regulated by various co-chaperones: J-domain
proteins and nucleotide exchange factors (NEFs).
Multiple ER DNAJ domain proteins have been identified
and may exist in distinct complexes with HSPA5 in
various locations in the ER, for example DNAJC3-p58IPK
in the lumen. HSPA5-NEFs include SIL1 and an atypical
HSP70 family protein HYOU1/ORP150. The ATPase activity
of Kar2p is stimulated by the NEFs: Sil1p and Lhs1p.
Length = 374
Score = 260 bits (666), Expect = 1e-83
Identities = 98/163 (60%), Positives = 125/163 (76%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+FEV +T GDTHLGGEDFD R++ H + FK+K+ KD+S + RAL++LR E+AKR LS
Sbjct: 212 VFEVLATNGDTHLGGEDFDQRVMEHFIKLFKKKHGKDISKDKRALQKLRREVEKAKRALS 271
Query: 63 SSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
S + IEI++L+DG DF ++RA+FEEL DLF+ TL+PV+K L+DA L KS I ++V
Sbjct: 272 SQHQTRIEIESLFDGEDFSETLTRAKFEELNMDLFKKTLKPVKKVLEDADLKKSDIDEIV 331
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA 165
LVGGSTRIPKVQ LL+ FF GK + INPDEAVAYGAAVQA
Sbjct: 332 LVGGSTRIPKVQQLLKEFFNGKEPSRGINPDEAVAYGAAVQAG 374
>gnl|CDD|212667 cd10170, HSP70_NBD, Nucleotide-binding domain of the HSP70 family.
HSP70 (70-kDa heat shock protein) family chaperones
assist in protein folding and assembly and can direct
incompetent "client" proteins towards degradation.
Typically, HSP70s have a nucleotide-binding domain (NBD)
and a substrate-binding domain (SBD). The nucleotide
sits in a deep cleft formed between the two lobes of the
NBD. The two subdomains of each lobe change conformation
between ATP-bound, ADP-bound, and nucleotide-free
states. ATP binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
HSP70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). Some HSP70 family members are not
chaperones but instead, function as NEFs to remove ADP
from their HSP70 chaperone partners during the ATP
hydrolysis cycle, some may function as both chaperones
and NEFs.
Length = 369
Score = 223 bits (571), Expect = 2e-69
Identities = 86/162 (53%), Positives = 108/162 (66%), Gaps = 1/162 (0%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV +T GD HLGG+DFDN L +LAE+FK K D+ ++PRALRRL+ AAE+AK LSS
Sbjct: 209 FEVLATGGDNHLGGDDFDNALADYLAEKFKEKGGIDLRLDPRALRRLKEAAEKAKIALSS 268
Query: 64 STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVL 123
S EA+I + L G D +++R FEEL L T+ VE+ L DA L I V+L
Sbjct: 269 SEEATITLPGLGSGGDLEVELTREEFEELIRPLLERTIDLVERVLADAGLKPEDIDAVLL 328
Query: 124 VGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA 165
VGGS+RIP V+ LL+ F GK SI+PDEAVA GAA+ AA
Sbjct: 329 VGGSSRIPLVRELLEELF-GKKPLRSIDPDEAVALGAAIYAA 369
>gnl|CDD|212676 cd10234, HSPA9-Ssq1-like_NBD, Nucleotide-binding domain of human
HSPA9 and similar proteins. This subfamily includes
human mitochondrial HSPA9 (also known as 70-kDa heat
shock protein 9, CSA; MOT; MOT2; GRP75; PBP74; GRP-75;
HSPA9B; MTHSP75; the gene encoding HSPA9 maps to
5q31.1), Escherichia coli DnaK, Saccharomyces cerevisiae
Stress-seventy subfamily Q protein 1/Ssq1p (also called
Ssc2p, Ssh1p, mtHSP70 homolog), and S. cerevisiae
Stress-Seventy subfamily C/Ssc1p (also called mtHSP70,
Endonuclease SceI 75 kDa subunit). It belongs to the
heat shock protein 70 (HSP70) family of chaperones that
assist in protein folding and assembly, and can direct
incompetent "client" proteins towards degradation.
Typically, HSP70s have a nucleotide-binding domain (NBD)
and a substrate-binding domain (SBD). The nucleotide
sits in a deep cleft formed between the two lobes of the
NBD. The two subdomains of each lobe change conformation
between ATP-bound, ADP-bound, and nucleotide-free
states. ATP binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
Hsp70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs); for Escherichia coli DnaK, these are the
DnaJ and GrpE, respectively.
Length = 376
Score = 212 bits (541), Expect = 5e-65
Identities = 86/170 (50%), Positives = 114/170 (67%), Gaps = 9/170 (5%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
FEV +T GDTHLGG+DFD R++ L EEFK++ D+ + AL+RL+ AAE+AK LSS
Sbjct: 210 FEVLATNGDTHLGGDDFDQRIIDWLVEEFKKEEGIDLRKDKMALQRLKEAAEKAKIELSS 269
Query: 64 STEASIE---IDALYDG---IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSA 117
TE I I A G ++ ++RA+FEEL DL T++PV++AL+DAKL S
Sbjct: 270 VTETEINLPFITADATGPKHLEM--TLTRAKFEELTEDLVERTIEPVKQALKDAKLSPSD 327
Query: 118 IHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAIL 167
I +V+LVGGSTRIP VQ L++ F GK N +NPDE VA GAA+Q +L
Sbjct: 328 IDEVILVGGSTRIPAVQELVKELF-GKEPNKGVNPDEVVAIGAAIQGGVL 376
>gnl|CDD|234955 PRK01433, hscA, chaperone protein HscA; Provisional.
Length = 595
Score = 205 bits (524), Expect = 2e-60
Identities = 124/351 (35%), Positives = 187/351 (53%), Gaps = 28/351 (7%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+F+V +T GD LGG D D + +L +F D+ + L+ A++AK TL+
Sbjct: 216 IFQVIATNGDNMLGGNDIDVVITQYLCNKF------DLPNSIDTLQ----LAKKAKETLT 265
Query: 63 SSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
+ S D + I++ E+L L T+ ++ L+ A I V+
Sbjct: 266 Y--KDSFNNDNIS--------INKQTLEQLILPLVERTINIAQECLEQAGNPN--IDGVI 313
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVLLVD 182
LVGG+TRIP ++ L F L+ I+PD+AV +GAA+QA L + + LL+D
Sbjct: 314 LVGGATRIPLIKDELYKAFKVDILS-DIDPDKAVVWGAALQAENLI----APHTNSLLID 368
Query: 183 VTPLSLGIETAGGVMTKLIERNTRIPCKQTQTFTTYADNQPAVTIQVFEGERAMTKDNNL 242
V PLSLG+E GG++ K+I RNT IP + FTTYADNQ + + +GER M D
Sbjct: 369 VVPLSLGMELYGGIVEKIIMRNTPIPISVVKEFTTYADNQTGIQFHILQGEREMAADCRS 428
Query: 243 LGTFDLTGIPPAPRGVPKIDVTFDLDANGILNVTAKDTSSGKSQNITIKNDKGRLSKEEI 302
L F+L G+PP G + +VTF +DA+GIL+V+A + S S I +K + G + K EI
Sbjct: 429 LARFELKGLPPMKAGSIRAEVTFAIDADGILSVSAYEKISNTSHAIEVKPNHG-IDKTEI 487
Query: 303 DRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKS 353
D M+ +A + D + A EA +FN+++A+ L+ESE S
Sbjct: 488 DIMLENAYKNAKIDYTTRLLQEAVIEAEALIFNIERAIAELTTLLSESEIS 538
>gnl|CDD|212670 cd10228, HSPA4_like_NDB, Nucleotide-binding domain of 105/110 kDa
heat shock proteins including HSPA4 and similar
proteins. This subgroup includes the human proteins,
HSPA4 (also known as 70-kDa heat shock protein 4, APG-2,
HS24/P52, hsp70 RY, and HSPH2; the human HSPA4 gene maps
to 5q31.1), HSPA4L (also known as 70-kDa heat shock
protein 4-like, APG-1, HSPH3, and OSP94; the human
HSPA4L gene maps to 4q28), and HSPH1 (also known as heat
shock 105kDa/110kDa protein 1, HSP105; HSP105A; HSP105B;
NY-CO-25; the human HSPH1 gene maps to 13q12.3),
Saccharomyces cerevisiae Sse1p and Sse2p, and a sea
urchin sperm receptor. It belongs to the 105/110 kDa
heat shock protein (HSP105/110) subfamily of the
HSP70-like family, and includes proteins believed to
function generally as co-chaperones of HSP70 chaperones,
acting as nucleotide exchange factors (NEFs), to remove
ADP from their HSP70 chaperone partners during the ATP
hydrolysis cycle. HSP70 chaperones assist in protein
folding and assembly, and can direct incompetent
"client" proteins towards degradation. Like HSP70
chaperones, HSP105/110s have an N-terminal
nucleotide-binding domain (NBD) and a C-terminal
substrate-binding domain (SBD). For HSP70 chaperones,
the nucleotide sits in a deep cleft formed between the
two lobes of the NBD. The two subdomains of each lobe
change conformation between ATP-bound, ADP-bound, and
nucleotide-free states. ATP binding opens up the
substrate-binding site; substrate-binding increases the
rate of ATP hydrolysis. Hsp70 chaperone activity is also
regulated by J-domain proteins.
Length = 381
Score = 192 bits (491), Expect = 2e-57
Identities = 83/165 (50%), Positives = 107/165 (64%), Gaps = 1/165 (0%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
+V STA D +LGG DFD L H A+EFK KYK D+ NP+A RL A E+ K+ LS+
Sbjct: 218 LKVLSTAFDRNLGGRDFDEALFEHFAKEFKEKYKIDVLSNPKARLRLLAACEKLKKVLSA 277
Query: 64 STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVL 123
+TEA + I+ L + D KI R FEELC+ L +P+EKAL +A L K IH V +
Sbjct: 278 NTEAPLNIECLMEDKDVSGKIKREEFEELCAPLLERVEEPLEKALAEAGLTKEDIHSVEI 337
Query: 124 VGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILS 168
VGGSTRIP V+ L+ F GK L+ ++N DEAVA G A+Q A+LS
Sbjct: 338 VGGSTRIPAVKELIAKVF-GKELSTTLNADEAVARGCALQCAMLS 381
>gnl|CDD|212683 cd11733, HSPA9-like_NBD, Nucleotide-binding domain of human HSPA9,
Escherichia coli DnaK, and similar proteins. This
subgroup includes human mitochondrial HSPA9 (also known
as 70-kDa heat shock protein 9, CSA; MOT; MOT2; GRP75;
PBP74; GRP-75; HSPA9B; MTHSP75; the gene encoding HSPA9
maps to 5q31.1), Escherichia coli DnaK, and
Saccharomyces cerevisiae Stress-Seventy subfamily
C/Ssc1p (also called mtHSP70, Endonuclease SceI 75 kDa
subunit). It belongs to the heat shock protein 70
(HSP70) family of chaperones that assist in protein
folding and assembly, and can direct incompetent
"client" proteins towards degradation. Typically, HSP70s
have a nucleotide-binding domain (NBD) and a
substrate-binding domain (SBD). The nucleotide sits in a
deep cleft formed between the two lobes of the NBD. The
two subdomains of each lobe change conformation between
ATP-bound, ADP-bound, and nucleotide-free states. ATP
binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
Hsp70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs); for Escherichia coli DnaK, these are the
DnaJ and GrpE, respectively. HSPA9 is involved in
multiple processses including mitochondrial import,
antigen processing, control of cellular proliferation
and differentiation, and regulation of glucose
responses. During glucose deprivation-induced cellular
stress, HSPA9 plays an important role in the suppression
of apoptosis by inhibiting a conformational change in
Bax that allow the release of cytochrome c. DnaK
modulates the heat shock response in Escherichia coli.
It protects E. coli from protein carbonylation, an
irreversible oxidative modification that increases
during organism aging and bacterial growth arrest. Under
severe thermal stress, it functions as part of a
bi-chaperone system: the DnaK system and the
ring-forming AAA+ chaperone ClpB (Hsp104) system, to
promote cell survival. DnaK has also been shown to
cooperate with GroEL and the ribosome-associated
Escherichia coli Trigger Factor in the proper folding of
cytosolic proteins. S. cerevisiae Ssc1p is the major
HSP70 chaperone of the mitochondrial matrix, promoting
translocation of proteins from the cytosol, across the
inner membrane, to the matrix, and their subsequent
folding. Ssc1p interacts with Tim44, a peripheral inner
membrane protein associated with the TIM23 protein
translocase. It is also a subunit of the endoSceI
site-specific endoDNase and is required for full
endoSceI activity. Ssc1p plays roles in the import of
Yfh1p, a nucleus-encoded mitochondrial protein involved
in iron homeostasis (and a homolog of human frataxin,
implicated in the neurodegenerative disease,
Friedreich's ataxia). Ssc1 also participates in
translational regulation of cytochrome c oxidase (COX)
biogenesis by interacting with Mss51 and
Mss51-containing complexes.
Length = 377
Score = 191 bits (487), Expect = 5e-57
Identities = 85/171 (49%), Positives = 115/171 (67%), Gaps = 5/171 (2%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
+FEV+ST GDT LGGEDFDN L+ HL +EFK++ D++ + AL+RLR AAE+AK
Sbjct: 208 KGVFEVKSTNGDTFLGGEDFDNALLRHLVKEFKKEQGIDLTKDNMALQRLREAAEKAKIE 267
Query: 61 LSSSTEASIE---IDALYDG-IDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKS 116
LSSS + I I A G K++RA+FE L DL + T++P +KAL+DA + KS
Sbjct: 268 LSSSLQTDINLPYITADASGPKHLNMKLTRAKFESLVGDLIKRTIEPCKKALKDAGVSKS 327
Query: 117 AIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAIL 167
I +V+LVGG TR+PKVQ ++ F GK + +NPDEAVA GAA+Q +L
Sbjct: 328 DIGEVILVGGMTRMPKVQETVKEIF-GKEPSKGVNPDEAVAIGAAIQGGVL 377
>gnl|CDD|212680 cd10238, HSPA14-like_NBD, Nucleotide-binding domain of human HSPA14
and similar proteins. Human HSPA14 (also known as
70-kDa heat shock protein 14, HSP70L1, HSP70-4; the gene
encoding HSPA14 maps to 10p13), is ribosome-associated
and belongs to the heat shock protein 70 (HSP70) family
of chaperones that assist in protein folding and
assembly, and can direct incompetent "client" proteins
towards degradation. Typically, HSP70s have a
nucleotide-binding domain (NBD) and a substrate-binding
domain (SBD). The nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is regulated by various co-chaperones: J-domain
proteins and nucleotide exchange factors (NEFs). HSPA14
interacts with the J-protein MPP11 to form the mammalian
ribosome-associated complex (mRAC). HSPA14 participates
in a pathway along with Nijmegen breakage syndrome 1
(NBS1, also known as p85 or nibrin), heat shock
transcription factor 4b (HSF4b), and HSPA4 (belonging to
a different subfamily), that induces tumor migration,
invasion, and transformation. HSPA14 is a potent T
helper cell (Th1) polarizing adjuvant that contributes
to antitumor immune responses.
Length = 375
Score = 188 bits (480), Expect = 6e-56
Identities = 80/165 (48%), Positives = 112/165 (67%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
++ V +T+ D +LGGE F L +LA EFKRK+K+D+ N RA+ +L AAE AK+
Sbjct: 211 SGMYRVLATSTDDNLGGESFTETLSQYLANEFKRKWKQDVRGNARAMMKLNNAAEVAKQI 270
Query: 61 LSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHD 120
LS+ A+ +++LY+GIDF +SRARFE LCS LF L+P+EK L+ A L K+ I+
Sbjct: 271 LSTLPSANCFVESLYEGIDFQCSVSRARFESLCSSLFPKCLEPIEKVLEQANLTKTDINK 330
Query: 121 VVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA 165
VVL GGS+RIPK+Q L+++ F + SI+PDE +A GAA QA
Sbjct: 331 VVLCGGSSRIPKLQQLIKDLFPSVEVLNSISPDEVIAIGAAKQAG 375
>gnl|CDD|212672 cd10230, HYOU1-like_NBD, Nucleotide-binding domain of human HYOU1
and similar proteins. This subgroup includes human
HYOU1 (also known as human hypoxia up-regulated 1,
GRP170; HSP12A; ORP150; GRP-170; ORP-150; the human
HYOU1 gene maps to11q23.1-q23.3) and Saccharomyces
cerevisiae Lhs1p (also known as Cer1p, SsI1). Mammalian
HYOU1 functions as a nucleotide exchange factor (NEF)
for HSPA5 (alos known as BiP, Grp78 or HspA5) and may
also function as a HSPA5-independent chaperone. S.
cerevisiae Lhs1p, does not have a detectable endogenous
ATPase activity like canonical HSP70s, but functions as
a NEF for Kar2p; it's interaction with Kar2p is
stimulated by nucleotide-binding. In addition, Lhs1p has
a nucleotide-independent holdase activity that prevents
heat-induced aggregation of proteins in vitro. This
subgroup belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as NEFs, to
remove ADP from their HSP70 chaperone partners during
the ATP hydrolysis cycle. HSP70 chaperones assist in
protein folding and assembly, and can direct incompetent
"client" proteins towards degradation. Like HSP70
chaperones, HSP105/110s have an N-terminal
nucleotide-binding domain (NBD) and a C-terminal
substrate-binding domain (SBD). For HSP70 chaperones,
the nucleotide sits in a deep cleft formed between the
two lobes of the NBD. The two subdomains of each lobe
change conformation between ATP-bound, ADP-bound, and
nucleotide-free states. ATP binding opens up the
substrate-binding site; substrate-binding increases the
rate of ATP hydrolysis. Hsp70 chaperone activity is also
regulated by J-domain proteins.
Length = 388
Score = 185 bits (471), Expect = 1e-54
Identities = 81/164 (49%), Positives = 104/164 (63%), Gaps = 2/164 (1%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSV--NPRALRRLRTAAERAKRTL 61
EV D LGG +FD RL HLA+EF+ K+K + V NPRA+ +L A RAK L
Sbjct: 225 IEVLGVGWDRTLGGREFDLRLADHLAKEFEEKHKAKVDVRTNPRAMAKLLKEANRAKEVL 284
Query: 62 SSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDV 121
S+++EA + I++LYD IDF TKI+RA FEELC+DLF + P++KAL+ A L I V
Sbjct: 285 SANSEAPVSIESLYDDIDFKTKITRAEFEELCADLFERAVAPIKKALESAGLTLKDIDSV 344
Query: 122 VLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA 165
L+GG+TR+PKVQ L K L +N DEA A GAA AA
Sbjct: 345 ELIGGATRVPKVQEELSEAVGKKKLGKHLNADEAAAMGAAYYAA 388
>gnl|CDD|212684 cd11734, Ssq1_like_NBD, Nucleotide-binding domain of Saccharomyces
cerevisiae Ssq1 and similar proteins. Ssq1p (also
called Stress-seventy subfamily Q protein 1, Ssc2p,
Ssh1p, mtHSP70 homolog) belongs to the heat shock
protein 70 (HSP70) family of chaperones that assist in
protein folding and assembly, and can direct incompetent
"client" proteins towards degradation. Typically, HSP70s
have a nucleotide-binding domain (NBD) and a
substrate-binding domain (SBD). The nucleotide sits in a
deep cleft formed between the two lobes of the NBD. The
two subdomains of each lobe change conformation between
ATP-bound, ADP-bound, and nucleotide-free states. ATP
binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
Hsp70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). S. cerevisiae Ssq1p is a mitochondrial
chaperone that is involved in iron-sulfur (Fe/S) center
biogenesis. Ssq1p plays a role in the maturation of
Yfh1p, a nucleus-encoded mitochondrial protein involved
in iron homeostasis (and a homolog of human frataxin,
implicated in the neurodegenerative disease,
Friedreich's ataxia).
Length = 373
Score = 177 bits (450), Expect = 1e-51
Identities = 80/165 (48%), Positives = 116/165 (70%), Gaps = 1/165 (0%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+FEV++T GDT LGGEDFDN +V ++ +EFKRKYK D++ N +A++R++ AAE+AK LS
Sbjct: 210 VFEVKATNGDTMLGGEDFDNAIVQYIIKEFKRKYKIDLTRNKKAIQRIKEAAEKAKIELS 269
Query: 63 SSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
SS E+ IE+ L I+R FE+L + + T+ P ++ L+DA L K I +V+
Sbjct: 270 SSEESVIELPYLDGPKHLRITITRREFEQLRKSICKRTIYPCKQCLKDAGLRKKDIDEVI 329
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAIL 167
LVGG TR+P +Q+++Q F GK + S+NPDEAVA GAA+Q +IL
Sbjct: 330 LVGGMTRMPYIQNVVQEIF-GKKPSKSVNPDEAVALGAAIQGSIL 373
>gnl|CDD|212677 cd10235, HscC_like_NBD, Nucleotide-binding domain of Escherichia
coli HscC and similar proteins. This subfamily
includes Escherichia coli HscC (also called heat shock
cognate protein C, Hsc62, or YbeW) and the the putative
DnaK-like protein Escherichia coli ECs0689. It belongs
to the heat shock protein 70 (Hsp70) family of
chaperones that assist in protein folding and assembly
and can direct incompetent "client" proteins towards
degradation. Typically, Hsp70s have a nucleotide-binding
domain (NBD) and a substrate-binding domain (SBD). The
nucleotide sits in a deep cleft formed between the two
lobes of the NBD. The two subdomains of each lobe change
conformation between ATP-bound, ADP-bound, and
nucleotide-free states. ATP binding opens up the
substrate-binding site; substrate-binding increases the
rate of ATP hydrolysis. Hsp70 chaperone activity is
regulated by various co-chaperones: J-domain proteins
and nucleotide exchange factors (NEFs). Two genes in the
vicinity of the HscC gene code for potential
cochaperones: J-domain containing proteins, DjlB/YbeS
and DjlC/YbeV. HscC and its co-chaperone partners may
play a role in the SOS DNA damage response. HscC does
not appear to require a NEF.
Length = 339
Score = 161 bits (411), Expect = 3e-46
Identities = 71/163 (43%), Positives = 99/163 (60%), Gaps = 8/163 (4%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSV-NPRALRRLRTAAERAKRTLS 62
EVR++AGD +LGGEDF L E F +K+ D +P L RL AAERAKR LS
Sbjct: 184 MEVRASAGDNYLGGEDFTRALA----EAFLKKHGLDFEKLDPSELARLLRAAERAKRALS 239
Query: 63 SSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
EA + + +G + ++R FEE+C L QP+E+AL+DA+L S I +++
Sbjct: 240 DQEEAEMSVR--IEGEELEYTLTREEFEEICQPLLERLRQPIERALRDARLKPSDIDEII 297
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA 165
LVGG+TR+P V+ L+ F G+ + +NPDE VA GAA+QA
Sbjct: 298 LVGGATRMPVVRKLVSRLF-GRFPLVHLNPDEVVALGAAIQAG 339
>gnl|CDD|212678 cd10236, HscA_like_NBD, Nucleotide-binding domain of HscA and
similar proteins. Escherichia coli HscA (heat shock
cognate protein A, also called Hsc66), belongs to the
heat shock protein 70 (HSP70) family of chaperones that
assist in protein folding and assembly and can direct
incompetent "client" proteins towards degradation.
Typically, HSP70s have a nucleotide-binding domain (NBD)
and a substrate-binding domain (SBD). The nucleotide
sits in a deep cleft formed between the two lobes of the
NBD. The two subdomains of each lobe change conformation
between ATP-bound, ADP-bound, and nucleotide-free
states. ATP binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
HSP70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). HscA's partner J-domain protein is HscB;
it does not appear to require a NEF, and has been shown
to be induced by cold-shock. The HscA-HscB
chaperone/co-chaperone pair is involved in [Fe-S]
cluster assembly.
Length = 355
Score = 153 bits (389), Expect = 8e-43
Identities = 69/162 (42%), Positives = 88/162 (54%), Gaps = 11/162 (6%)
Query: 3 LFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLS 62
+FEV +T GD+ LGG+DFD L L +KY ++ L A +AK LS
Sbjct: 204 VFEVLATGGDSALGGDDFDQLLAELL----LKKYGLKSLISDEDQAELLLIARKAKEALS 259
Query: 63 SSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
+ E +E G DF I+R FE+L L + TL ++AL+DA L I V+
Sbjct: 260 GAEE--VE----VRGQDFKCTITREEFEKLIDPLVKKTLNICKQALRDAGLSVKDIKGVI 313
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQA 164
LVGGSTRIP VQ + FF K L INPDE VA GAA+QA
Sbjct: 314 LVGGSTRIPLVQEAVSKFFGQKPLC-DINPDEVVAIGAALQA 354
>gnl|CDD|212682 cd11732, HSP105-110_like_NBD, Nucleotide-binding domain of 105/110
kDa heat shock proteins including HSPA4, HYOU1, and
similar proteins. This subfamily include the human
proteins, HSPA4 (also known as 70-kDa heat shock protein
4, APG-2, HS24/P52, hsp70 RY, and HSPH2; the human HSPA4
gene maps to 5q31.1), HSPA4L (also known as 70-kDa heat
shock protein 4-like, APG-1, HSPH3, and OSP94; the human
HSPA4L gene maps to 4q28), and HSPH1 (also known as heat
shock 105kDa/110kDa protein 1, HSP105; HSP105A; HSP105B;
NY-CO-25; the human HSPH1 gene maps to 13q12.3), HYOU1
(also known as human hypoxia up-regulated 1, GRP170;
HSP12A; ORP150; GRP-170; ORP-150; the human HYOU1 gene
maps to11q23.1-q23.3), Saccharomyces cerevisiae Sse1p,
Sse2p, and Lhs1p, and a sea urchin sperm receptor. It
belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family, and
includes proteins believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, the nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is also regulated by J-domain proteins.
Length = 377
Score = 153 bits (387), Expect = 2e-42
Identities = 67/162 (41%), Positives = 98/162 (60%), Gaps = 1/162 (0%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
+V TA D H GG DFD + H A+EFK KYK D+ NP+A R+ TAAE+ K+ LS+
Sbjct: 217 LKVLGTACDKHFGGRDFDLAITEHFADEFKTKYKIDIRENPKAYNRILTAAEKLKKVLSA 276
Query: 64 STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVL 123
+T A ++++ + +D +++SR EEL L +PV KAL AKL + V +
Sbjct: 277 NTNAPFSVESVMNDVDVSSQLSREELEELVKPLLERVTEPVTKALAQAKLSAEEVDFVEI 336
Query: 124 VGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA 165
+GG+TRIP ++ + F GK L+ ++N DEA+A GAA A
Sbjct: 337 IGGTTRIPTLKQSISEAF-GKPLSTTLNQDEAIAKGAAFICA 377
>gnl|CDD|212674 cd10232, ScSsz1p_like_NBD, Nucleotide-binding domain of
Saccharmomyces cerevisiae Ssz1pp and similar proteins.
Saccharomyces cerevisiae Ssz1p (also known as
/Pdr13p/YHR064C) belongs to the heat shock protein 70
(HSP70) family of chaperones that assist in protein
folding and assembly and can direct incompetent "client"
proteins towards degradation. Typically, HSP70s have a
nucleotide-binding domain (NBD) and a substrate-binding
domain (SBD). The nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. HSP70 chaperone
activity is regulated by various co-chaperones: J-domain
proteins and nucleotide exchange factors (NEFs). Some
family members are not chaperones but rather, function
as NEFs for their Hsp70 partners, while other family
members function as both chaperones and NEFs. Ssz1 does
not function as a chaperone; it facilitates the
interaction between the HSP70 Ssb protein and its
partner J-domain protein Zuo1 (also known as zuotin) on
the ribosome. Ssz1 is found in a stable heterodimer
(called RAC, ribosome associated complex) with Zuo1.
Zuo1 can only stimulate the ATPase activity of Ssb, when
it is in complex with Ssz1. Ssz1 binds ATP but neither
nucleotide-binding, hydrolysis, or its SBD, is needed
for its in vivo function.
Length = 386
Score = 149 bits (378), Expect = 4e-41
Identities = 70/172 (40%), Positives = 103/172 (59%), Gaps = 7/172 (4%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
G L+ + +TA D LGG+ D+ LV H A+EF +K K D N RAL +LR +E K+T
Sbjct: 215 GGLYTILATAHDPGLGGDTLDDALVKHFAKEFTKKTKTDPRTNARALAKLRAESEITKKT 274
Query: 61 LSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHD 120
LS+ST A+ +++L +GIDF++ I+R RFE L S +FR V A+ A LD I +
Sbjct: 275 LSASTSATCSVESLAEGIDFHSSINRLRFELLASAVFRQFAAFVTSAVAKAGLDALDIDE 334
Query: 121 VVLVGGSTRIPKVQSLLQNFFCGK-------SLNLSINPDEAVAYGAAVQAA 165
V+LVGG+ PK+ S L F +++ +++P E VA G A+QA+
Sbjct: 335 VLLVGGTAFTPKLASNLSYLFPETTTITAPITVSKALDPSELVARGCAIQAS 386
>gnl|CDD|212679 cd10237, HSPA13-like_NBD, Nucleotide-binding domain of human HSPA13
and similar proteins. Human HSPA13 (also called 70-kDa
heat shock protein 13, STCH, "stress 70 protein
chaperone, microsome-associated, 60kD", "stress 70
protein chaperone, microsome-associated, 60kDa"; the
gene encoding HSPA13 maps to 21q11.1) belongs to the
heat shock protein 70 (HSP70) family of chaperones that
assist in protein folding and assembly and can direct
incompetent "client" proteins towards degradation.
Typically, HSP70s have a nucleotide-binding domain (NBD)
and a substrate-binding domain (SBD). The nucleotide
sits in a deep cleft formed between the two lobes of the
NBD. The two subdomains of each lobe change conformation
between ATP-bound, ADP-bound, and nucleotide-free
states. ATP binding opens up the substrate-binding site;
substrate-binding increases the rate of ATP hydrolysis.
HSP70 chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). STCH contains an NBD but lacks an SBD.
STCH may function to regulate cell proliferation and
survival, and modulate the TRAIL-mediated cell death
pathway. The HSPA13 gene is a candidate stomach cancer
susceptibility gene; a mutation in the NBD coding region
of HSPA13 has been identified in stomach cancer cells.
The NBD of HSPA13 interacts with the ubiquitin-like
proteins Chap1 and Chap2, implicating HSPA13 in
regulating cell cycle and cell death events. HSPA13 is
induced by the Ca2+ ionophore A23187.
Length = 417
Score = 147 bits (372), Expect = 5e-40
Identities = 70/184 (38%), Positives = 105/184 (57%), Gaps = 10/184 (5%)
Query: 1 GALFEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRT 60
G +F R+ AG+ LGG+DF+ RL+ +L ++ KY K N ++RLR A E AK
Sbjct: 232 GGMFLTRAMAGNNRLGGQDFNQRLLQYLYQKIYEKYGKVPD-NKEDIQRLRQAVEAAKIN 290
Query: 61 LSSSTEASIEI-----DALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDK 115
L+ +I + + F +++R FE L DLF+ L P+E L + LDK
Sbjct: 291 LTLHPSTTISLNLTLLSEGESIVKFEYELTRDEFETLNEDLFQKILLPIEAVLAEGHLDK 350
Query: 116 SAIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGD---QS 172
+ ++VLVGGSTRIP+++ ++ FF GK N S++P+ AV G A+QA I+ G Q
Sbjct: 351 EEVDEIVLVGGSTRIPRIRQVIGRFF-GKDPNTSVDPELAVVTGVAIQAGIIGGSWPLQV 409
Query: 173 SAIQ 176
SAI+
Sbjct: 410 SAIE 413
>gnl|CDD|212689 cd11739, HSPH1_NBD, Nucleotide-binding domain of HSPH1. Human
HSPH1 (also known as heat shock 105kDa/110kDa protein 1,
HSP105; HSP105A; HSP105B; NY-CO-25; the human HSPH1 gene
maps to 13q12.3) suppresses the aggregation of denatured
proteins caused by heat shock in vitro, and may
substitute for HSP70 family proteins to suppress the
aggregation of denatured proteins in cells under severe
stress. It reduces the protein aggregation and
cytotoxicity associated with Polyglutamine (PolyQ)
diseases, including Huntington's disease, which are a
group of inherited neurodegenerative disorders sharing
the characteristic feature of having insoluble protein
aggregates in neurons. The expression of HSPH1 is
elevated in various malignant tumors, including
malignant melanoma, and there is a direct correlation
between HSPH1 expression and B-cell non-Hodgkin
lymphomas (B-NHLs) aggressiveness and proliferation.
HSPH1 belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, the nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. Hsp70 chaperone
activity is also regulated by J-domain proteins.
Length = 383
Score = 135 bits (340), Expect = 8e-36
Identities = 70/165 (42%), Positives = 99/165 (60%), Gaps = 2/165 (1%)
Query: 5 EVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS- 63
+V TA D LGG++FD +LV H EFK KYK D RAL RL E+ K+ +SS
Sbjct: 220 KVLGTAFDPFLGGKNFDEKLVEHFCAEFKTKYKLDAKSKIRALLRLYQECEKLKKLMSSN 279
Query: 64 STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVL 123
ST+ + I+ + D K++R++FEELC+DL + P+ L+ L + V +
Sbjct: 280 STDLPLNIECFMNDKDVSGKMNRSQFEELCADLLQRIEVPLYSLLEQTHLKVEDVSAVEI 339
Query: 124 VGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILS 168
VGG+TRIP V+ + FF GK ++ ++N DEAVA G A+Q AILS
Sbjct: 340 VGGATRIPAVKERIAKFF-GKDVSTTLNADEAVARGCALQCAILS 383
>gnl|CDD|212687 cd11737, HSPA4_NBD, Nucleotide-binding domain of HSPA4. Human
HSPA4 (also known as 70-kDa heat shock protein 4, APG-2,
HS24/P52, hsp70 RY, and HSPH2; the human HSPA4 gene maps
to 5q31.1) responds to acidic pH stress, is involved in
the radioadaptive response, is required for normal
spermatogenesis and is overexpressed in hepatocellular
carcinoma. It participates in a pathway along with NBS1
(Nijmegen breakage syndrome 1, also known as p85 or
nibrin), heat shock transcription factor 4b (HDF4b), and
HSPA14 (belonging to a different HSP70 subfamily) that
induces tumor migration, invasion, and transformation.
HSPA4 expression in sperm was increased in men with
oligozoospermia, especially in those with varicocele.
HSPA4 belongs to the 105/110 kDa heat shock protein
(HSP105/110) subfamily of the HSP70-like family.
HSP105/110s are believed to function generally as
co-chaperones of HSP70 chaperones, acting as nucleotide
exchange factors (NEFs), to remove ADP from their HSP70
chaperone partners during the ATP hydrolysis cycle.
HSP70 chaperones assist in protein folding and assembly,
and can direct incompetent "client" proteins towards
degradation. Like HSP70 chaperones, HSP105/110s have an
N-terminal nucleotide-binding domain (NBD) and a
C-terminal substrate-binding domain (SBD). For HSP70
chaperones, the nucleotide sits in a deep cleft formed
between the two lobes of the NBD. The two subdomains of
each lobe change conformation between ATP-bound,
ADP-bound, and nucleotide-free states. ATP binding opens
up the substrate-binding site; substrate-binding
increases the rate of ATP hydrolysis. Hsp70 chaperone
activity is also regulated by J-domain proteins.
Length = 383
Score = 135 bits (340), Expect = 8e-36
Identities = 69/166 (41%), Positives = 101/166 (60%), Gaps = 2/166 (1%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
+V +TA DT LGG FD LV++ EEF +KYK D+ RAL RL E+ K+ +S+
Sbjct: 219 LKVLATAFDTTLGGRKFDEVLVNYFCEEFGKKYKLDIKSKIRALLRLSQECEKLKKLMSA 278
Query: 64 -STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
+++ + I+ + ID ++R +F E+C DL P+ L+ AKL K I+ V
Sbjct: 279 NASDLPLNIECFMNDIDVSGTMNRGKFLEMCDDLLARVEPPLRSVLEQAKLKKEDIYAVE 338
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILS 168
+VGG+TRIP V+ + FF GK ++ ++N DEAVA G A+Q AILS
Sbjct: 339 IVGGATRIPAVKEKISKFF-GKEVSTTLNADEAVARGCALQCAILS 383
>gnl|CDD|212688 cd11738, HSPA4L_NBD, Nucleotide-binding domain of HSPA4L. Human
HSPA4L (also known as 70-kDa heat shock protein 4-like,
APG-1, HSPH3, and OSP94; the human HSPA4L gene maps to
4q28) is expressed ubiquitously and predominantly in the
testis. It is required for normal spermatogenesis and
plays a role in osmotolerance. HSPA4L belongs to the
105/110 kDa heat shock protein (HSP105/110) subfamily of
the HSP70-like family. HSP105/110s are believed to
function generally as co-chaperones of HSP70 chaperones,
acting as nucleotide exchange factors (NEFs), to remove
ADP from their HSP70 chaperone partners during the ATP
hydrolysis cycle. HSP70 chaperones assist in protein
folding and assembly, and can direct incompetent
"client" proteins towards degradation. Like HSP70
chaperones, HSP105/110s have an N-terminal
nucleotide-binding domain (NBD) and a C-terminal
substrate-binding domain (SBD). For HSP70 chaperones,
the nucleotide sits in a deep cleft formed between the
two lobes of the NBD. The two subdomains of each lobe
change conformation between ATP-bound, ADP-bound, and
nucleotide-free states. ATP binding opens up the
substrate-binding site; substrate-binding increases the
rate of ATP hydrolysis. Hsp70 chaperone activity is also
regulated by J-domain proteins.
Length = 383
Score = 129 bits (326), Expect = 7e-34
Identities = 63/166 (37%), Positives = 105/166 (63%), Gaps = 2/166 (1%)
Query: 4 FEVRSTAGDTHLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSS 63
+V +T D +LGG +FD LV + +EFK KYK ++ N RAL RL E+ K+ +S+
Sbjct: 219 LKVLATTFDPYLGGRNFDEALVDYFCDEFKTKYKINVKENSRALLRLYQECEKLKKLMSA 278
Query: 64 -STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVV 122
+++ + I+ + +D +K++RA+FE+LC+ L P++ ++ A L + I+ +
Sbjct: 279 NASDLPLNIECFMNDLDVSSKMNRAQFEQLCASLLARVEPPLKAVMEQANLQREDIYSIE 338
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILS 168
+VGG+TRIP V+ + +FF K ++ ++N DEAVA G A+Q AILS
Sbjct: 339 IVGGATRIPAVKEQITSFFL-KDISTTLNADEAVARGCALQCAILS 383
>gnl|CDD|212673 cd10231, YegD_like, Escherichia coli YegD, a putative chaperone
protein, and related proteins. This bacterial subfamily
includes the uncharacterized Escherichia coli YegD. It
belongs to the heat shock protein 70 (HSP70) family of
chaperones that assist in protein folding and assembly
and can direct incompetent "client" proteins towards
degradation. Typically, HSP70s have a nucleotide-binding
domain (NBD) and a substrate-binding domain (SBD). The
nucleotide sits in a deep cleft formed between the two
lobes of the NBD. The two subdomains of each lobe change
conformation between ATP-bound, ADP-bound, and
nucleotide-free states. ATP binding opens up the
substrate-binding site; substrate-binding increases the
rate of ATP hydrolysis. YegD lacks the SBD. HSP70
chaperone activity is regulated by various
co-chaperones: J-domain proteins and nucleotide exchange
factors (NEFs). Some family members are not chaperones
but instead, function as NEFs for their Hsp70 partners,
other family members function as both chaperones and
NEFs.
Length = 415
Score = 70.3 bits (173), Expect = 4e-13
Identities = 36/120 (30%), Positives = 52/120 (43%), Gaps = 15/120 (12%)
Query: 34 RKYKKDMSVNPRALRRLRT------------AAERAKRTLSSSTEASIEIDALYDGIDFY 81
R+ +D +V P L RL T A E AK LSS E I++D + +
Sbjct: 276 RELARD-AVEPELLERLITVIEEELGHRLARAVEAAKIALSSQDETRIDLD--FVEVGLE 332
Query: 82 TKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVLVGGSTRIPKVQSLLQNFF 141
++RA FE + V++AL A + AI V L GGS+ +P V+ F
Sbjct: 333 APVTRAEFEGAIAPDLERIEAAVDEALAQAGVSPDAIDRVFLTGGSSLVPAVRQAFAARF 392
>gnl|CDD|233354 TIGR01312, XylB, D-xylulose kinase. This model describes
D-xylulose kinases, a subfamily of the FGGY family of
carbohydrate kinases. The member from Klebsiella
pneumoniae, designated DalK (see PMID:9324246), was
annotated erroneously in GenBank as D-arabinitol kinase
but is authentic D-xylulose kinase. D-xylulose kinase
(XylB) generally is found with xylose isomerase (XylA)
and acts in xylose utilization [Energy metabolism,
Sugars].
Length = 481
Score = 41.9 bits (99), Expect = 5e-04
Identities = 31/118 (26%), Positives = 49/118 (41%), Gaps = 14/118 (11%)
Query: 95 DLFRSTLQPVEKALQDA-----KLDKSAIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLS 149
DL R+ L+ V AL+D+ + I + L+GG + P + +L + F
Sbjct: 363 DLTRAVLEGVTFALRDSLDILREAGGIPIQSIRLIGGGAKSPAWRQMLADIF-----GTP 417
Query: 150 I---NPDEAVAYGAAVQAAI-LSGDQSSAIQDVLLVDVTPLSLGIETAGGVMTKLIER 203
+ +E A GAA+ AA L +A+ +V T L I +L ER
Sbjct: 418 VDVPEGEEGPALGAAILAAWALGEKDLAALCSEAVVKQTESVLPIAENVEAYEELYER 475
>gnl|CDD|236954 PRK11678, PRK11678, putative chaperone; Provisional.
Length = 450
Score = 36.4 bits (85), Expect = 0.028
Identities = 31/90 (34%), Positives = 45/90 (50%), Gaps = 5/90 (5%)
Query: 49 RLRTAAERAKRTLSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKAL 108
RL +AE AK LS E +D + DG+ T+IS+ EE S L+ V+ AL
Sbjct: 336 RLVRSAEEAKIALSDQAETRASLDFISDGLA--TEISQQGLEEAISQPLARILELVQLAL 393
Query: 109 QDAKLDKSAIHDVVLVGGSTRIPKVQSLLQ 138
A++ I+ L GGS R P +++ L
Sbjct: 394 DQAQVKPDVIY---LTGGSARSPLIRAALA 420
>gnl|CDD|212668 cd10225, MreB_like, MreB and similar proteins. MreB is a bacterial
protein which assembles into filaments resembling those
of eukaryotic F-actin. It is involved in determining the
shape of rod-like bacterial cells, by assembling into
large fibrous spirals beneath the cell membrane. MreB
has also been implicated in chromosome segregation;
specifically MreB is thought to bind to and segregate
the replication origin of bacterial chromosomes.
Length = 320
Score = 32.8 bits (76), Expect = 0.32
Identities = 39/159 (24%), Positives = 67/159 (42%), Gaps = 27/159 (16%)
Query: 14 HLGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERAKRTLSSSTEASIEIDA 73
+GG+DFD ++ ++ +RKY L AE K + S+ E
Sbjct: 171 RVGGDDFDEAIIRYV----RRKYN---------LLIGERTAEEIKIEIGSAYPLDEEETM 217
Query: 74 LYDGIDFYTKISRARFEELCSDLFRSTLQ-PVEKALQDAK--LDK------SAIHD--VV 122
G D T + R E+ S+ R L+ P+++ ++ K L+K + I D +V
Sbjct: 218 EVKGRDLVTGLPRTV--EVTSEEVREALKEPLDEIVEAIKSVLEKTPPELAADILDRGIV 275
Query: 123 LVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAA 161
L GG + + L+ G + ++ +P VA GA
Sbjct: 276 LTGGGALLRGLDELISEET-GLPVRVAEDPLTCVAKGAG 313
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 32.7 bits (75), Expect = 0.41
Identities = 26/108 (24%), Positives = 54/108 (50%), Gaps = 15/108 (13%)
Query: 290 IKNDKGRLSKEEIDRMINDAERYKDEDERQKERISAR-NNLEAYVFNVKQALDN------ 342
+K L+ E++++ + + E+ K+E E + +I+AR L+ + +K+A++
Sbjct: 377 LKKRLTGLTPEKLEKELEELEKAKEEIEEEISKITARIGELKKEIKELKKAIEELKKAKG 436
Query: 343 ----AGNKLTESEKSRCREECDATLKWLDNNTLADKEEYQDKLQQLQK 386
G +LTE + EE A LK + +E ++K ++L+K
Sbjct: 437 KCPVCGRELTEEHRKELLEEYTAELK----RIEKELKEIEEKERKLRK 480
>gnl|CDD|198375 cd07809, FGGY_D-XK_1, D-xylulose kinases, subgroup 1; members of
the FGGY family of carbohydrate kinases. This subgroup
is composed of D-xylulose kinases (XK, also known as
xylulokinase; EC 2.7.1.17) from bacteria and eukaryota.
They share high sequence similarity with Escherichia
coli xylulokinase (EcXK), which catalyzes the
rate-limiting step in the ATP-dependent phosphorylation
of D-xylulose to produce D-xylulose 5-phosphate (X5P)
and ADP. Some uncharacterized sequences are also
included in this subfamily. EcXK exists as a dimer. Each
monomer consists of two large domains separated by an
open cleft that forms an active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. The presence of Mg2+ or Mn2+ might be
required for catalytic activity. Members of this
subgroup belong to the FGGY family of carbohydrate
kinases.
Length = 487
Score = 31.9 bits (73), Expect = 0.58
Identities = 17/64 (26%), Positives = 33/64 (51%), Gaps = 3/64 (4%)
Query: 120 DVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAA-ILSGDQSSAIQDV 178
++ L+GG + P + ++ + + + +EA A GAA+QAA L+G+ + +
Sbjct: 397 EIRLIGGGAKSPAWRQIIADIMNAEVVVPDT--EEAAALGAAIQAAWCLTGEDGADVALA 454
Query: 179 LLVD 182
L D
Sbjct: 455 ELCD 458
>gnl|CDD|180664 PRK06705, PRK06705, argininosuccinate lyase; Provisional.
Length = 502
Score = 31.5 bits (71), Expect = 0.79
Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 5/54 (9%)
Query: 288 ITIKNDKGRLSKEEIDRMIND-AERYKDED---ERQKERIS-ARNNLEAYVFNV 336
I +N G SK+E++RMIN+ E ++ E+ E++K+RI A N+L N+
Sbjct: 446 IQKRNVYGGPSKKEMERMINNRKELFRKEEEVFEKEKQRILQAENDLNMLASNI 499
>gnl|CDD|100065 cd02636, R3H_sperm-antigen, R3H domain of a group of metazoan
proteins that is related to the sperm-associated antigen
7. The name of the R3H domain comes from the
characteristic spacing of the most conserved arginine
and histidine residues. The function of the domain is
predicted to bind ssDNA or ssRNA in a sequence-specific
manner.
Length = 61
Score = 28.4 bits (64), Expect = 1.0
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 86 RARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVLVGGST 128
R E+ S + +++ EK K+++S +HDV V G T
Sbjct: 1 RKSMEKEVSKFIKDSVRTREKFQPMDKVERSIVHDVAEVAGLT 43
>gnl|CDD|233543 TIGR01716, RGG_Cterm, transcriptional activator, Rgg/GadR/MutR
family, C-terminal domain. This model describes the
whole, except for a 60 residue N-terminal
helix-turn-helix DNA-binding domain (PFAM pfam01381) of
the family of proteins related to the transcriptional
regulator Rgg, also called RopB. Rgg is required for
secretion of several proteins, including a cysteine
proteinase associated with virulence. GadR (GP|2352485)
is a positive regulator of a glutamate-dependent acid
resistance mechanism. MutR is a transcriptional
activator for mutacin biosynthesis genes in
Streptococcus mutans. This family appears restricted to
the low-GC Gram-positive bacteria, including at least
eight members in Lactococcus lactis [Regulatory
functions, DNA interactions].
Length = 220
Score = 30.7 bits (70), Expect = 1.2
Identities = 18/88 (20%), Positives = 28/88 (31%), Gaps = 12/88 (13%)
Query: 300 EEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTESEKSRCREEC 359
+ E+ D ++ ERI ++ G K + EK E+
Sbjct: 145 SYAQYFLEKLEKILDPEDDLYERILFNFLKGIILYKE-------GQKESGEEKI---EQA 194
Query: 360 DATLKWLDNNTLADKEEYQDKLQQLQKS 387
L TLA YQ L++ K
Sbjct: 195 IEIFDELGYPTLAA--YYQKLLEKFVKK 220
>gnl|CDD|222881 PHA02566, alt, ADP-ribosyltransferase; Provisional.
Length = 684
Score = 30.5 bits (69), Expect = 2.2
Identities = 18/121 (14%), Positives = 36/121 (29%), Gaps = 4/121 (3%)
Query: 268 DANGILNVTAKDTSSGKSQNITIKNDKGRLSKEEIDRMINDAERYKDEDERQKERISAR- 326
A I ++ L + R + DE+ K +IS
Sbjct: 271 PAEEIKTNEGSGAIKTMVAASRFESSDYEL---DYFRKFIFLRHIGEVDEKIKLKISEAI 327
Query: 327 NNLEAYVFNVKQALDNAGNKLTESEKSRCREECDATLKWLDNNTLADKEEYQDKLQQLQK 386
+ + + ++L E K E L+W+++ K + +L +
Sbjct: 328 KQEDQTSIKNLEKFAASVDELLEDYKDIVFENSLDALEWINDLNKGRKGMPDEVKAELTR 387
Query: 387 S 387
S
Sbjct: 388 S 388
>gnl|CDD|236823 PRK11021, PRK11021, putative transporter; Provisional.
Length = 410
Score = 29.9 bits (68), Expect = 2.5
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 9/33 (27%)
Query: 15 LGGEDFDNRLVSHLAEEFKRKYKKDMSVNPRAL 47
+G E F +HLA EFK ++D PRAL
Sbjct: 191 VGIEAF-----AHLASEFKNP-ERDF---PRAL 214
>gnl|CDD|220403 pfam09788, Tmemb_55A, Transmembrane protein 55A. Members of this
family catalyze the hydrolysis of the 4-position
phosphate of phosphatidylinositol 4,5-bisphosphate, in
the reaction: 1-phosphatidyl-myo-inositol
4,5-bisphosphate + H(2)O =
1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Length = 258
Score = 29.4 bits (66), Expect = 3.0
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 390 PLMSKMHGGAGGASAGDMPRGGPTVEEVD 418
PL+S+ G G S GD G P+ D
Sbjct: 9 PLLSEDIDGGTGVSPGDEGAGPPSKPPYD 37
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 29.7 bits (67), Expect = 3.0
Identities = 19/82 (23%), Positives = 30/82 (36%), Gaps = 2/82 (2%)
Query: 270 NGILNVTAKDTSSGKSQNITIKNDKGRLSKEEIDRMINDAERYKDEDERQKERISARNNL 329
G+ +V D + I I+ DK + E R ++ K ++S
Sbjct: 335 EGLKSVRLADFYGNEE--IKIELDKSKTPSENAQRYFKKYKKLKGAKVNLDRQLSELKEA 392
Query: 330 EAYVFNVKQALDNAGNKLTESE 351
AY + K AL+ A K E
Sbjct: 393 IAYYESAKTALEKAEGKKAIEE 414
>gnl|CDD|237609 PRK14096, pgi, glucose-6-phosphate isomerase; Provisional.
Length = 528
Score = 29.9 bits (68), Expect = 3.0
Identities = 17/51 (33%), Positives = 23/51 (45%), Gaps = 8/51 (15%)
Query: 72 DALY--DGIDFYTKISRARFEELCSDLFRSTLQP-VEKALQD-AKLDKSAI 118
D LY + + ISR F D F +L+P +KA A L+ AI
Sbjct: 12 DWLYYHPELGLWLDISRMNF----DDAFLESLEPKFQKAFAAMAALEAGAI 58
>gnl|CDD|198371 cd07803, FGGY_D-XK, D-xylulose kinases; a subgroup of the FGGY
family of carbohydrate kinases. This subfamily is
predominantly composed of bacterial D-xylulose kinases
(XK, also known as xylulokinase; EC 2.7.1.17), which
catalyze the rate-limiting step in the ATP-dependent
phosphorylation of D-xylulose to produce D-xylulose
5-phosphate (X5P) and ADP. Some uncharacterized
sequences are also included in this subfamily. The
prototypical member of this subfamily is Escherichia
coli xylulokinase (EcXK), which exists as a dimer. Each
monomer consists of two large domains separated by an
open cleft that forms an active site. This model
includes both the N-terminal domain, which adopts a
ribonuclease H-like fold, and the structurally related
C-terminal domain. XKs do not have any known allosteric
regulators, and they may have weak but significant
activity in the absence of substrate. The presence of
Mg2+ or Mn2+ is required for catalytic activity. Members
of this subfamily belong to the FGGY family of
carbohydrate kinases.
Length = 482
Score = 29.6 bits (67), Expect = 3.3
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 2/73 (2%)
Query: 115 KSAIHDVVLVGGSTRIPKVQSLLQNFFCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSA 174
+A + L+GG + + +L + G + L N + A + GAA+ AA+ +GD +
Sbjct: 390 GTAPQRIKLIGGGAKSELWRQILADVL-GVPVELPANAEGA-SVGAALLAAVGAGDFADL 447
Query: 175 IQDVLLVDVTPLS 187
+ V P+
Sbjct: 448 NEAARTVRQLPVI 460
>gnl|CDD|240714 cd12268, RRM_Vip1, RNA recognition motif in fission yeast protein
Vip1 and similar proteins. This subfamily corresponds
to Vip1, an RNA-binding protein encoded by gene vip1
from fission yeast Schizosaccharomyces pombe. Its
biological role remains unclear. Vip1 contains an
N-terminal RNA recognition motif (RRM), also termed RBD
(RNA binding domain) or RNP (ribonucleoprotein domain).
.
Length = 68
Score = 27.1 bits (60), Expect = 3.9
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 141 FCGKSLNLSINPDEAVAYGAAVQAAILSGDQSSAIQDVLLVDVTPLS 187
FCGK NL + D Q A ++ ++ SA + LL+D L
Sbjct: 21 FCGKISNLDLTND------GESQTATITFEKPSAAKTALLLDNALLG 61
>gnl|CDD|223918 COG0849, ftsA, Cell division ATPase FtsA [Cell division and
chromosome partitioning].
Length = 418
Score = 29.1 bits (66), Expect = 4.1
Identities = 32/122 (26%), Positives = 51/122 (41%), Gaps = 15/122 (12%)
Query: 54 AERAKRTLSS------STEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKA 107
AER K S E +IE+ ++ G D +++R+ E+ L+ V+
Sbjct: 253 AERIKIKYGSALISLADDEETIEVPSV--GSDIPRQVTRSELSEIIEARVEEILELVKAE 310
Query: 108 LQDAKLDKSAIHDVVLVGGSTRIPKVQSLLQNFF-----CGKSLNLSINPDEAV--AYGA 160
L+ + L VVL GG ++P + L + F G LN+ D A A+
Sbjct: 311 LRKSGLPNHLPGGVVLTGGGAQLPGIVELAERIFGRPVRLGVPLNIVGLTDIARNPAFST 370
Query: 161 AV 162
AV
Sbjct: 371 AV 372
>gnl|CDD|234567 PRK00005, fmt, methionyl-tRNA formyltransferase; Reviewed.
Length = 309
Score = 29.3 bits (67), Expect = 4.1
Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 27/87 (31%)
Query: 159 GAA-VQAAILSGDQSSAIQ-----------DVLLVDVTPLSLGIETAGGVMTKL------ 200
GAA +Q AI++GD + + D+LL P++ +TAG + KL
Sbjct: 116 GAAPIQRAIIAGDAETGVTIMQMDEGLDTGDMLLKAEVPITP-TDTAGELHDKLAELGAD 174
Query: 201 --------IERNTRIPCKQTQTFTTYA 219
+E T P Q + TYA
Sbjct: 175 LLVETLKGLEDGTLTPIPQDEEGVTYA 201
>gnl|CDD|185753 cd09214, GH64-like, glycosyl hydrolase 64 family. This family is
represented by the laminaripentaose-producing,
beta-1,3-glucanase (LPHase) of Streptomyces matensis and
related bacterial and ascomycete proteins. LPHase is a
member of glycoside hydrolase family 64 (GH64), it is an
inverting enzyme involved in the cleavage of long-chain
polysaccharide beta-1,3-glucans, into specific
pentasaccharide oligomers. LPHase is a two-domain
crescent fold structure: one domain is composed of 10
beta-strands, eight coming from the N-terminus of the
protein and two from the C-terminal region, and the
protein has a second inserted domain; this cd includes
both domains. This protein has an electronegative,
substrate-binding cleft, and conserved Glu and Asp
residues involved in the cleavage of the
beta-1,3-glucan, laminarin, a plant and fungal cell wall
component. Among bacteria, many beta-1,3-glucanases are
implicated in fungal cell wall degradation. Also
included in this family is GluB , the beta-1,3-glucanase
B from Lysobacter enzymogenes Strain N4-7. Recombinant
GluB demonstrated higher relative activity toward the
branched-chain beta-1,3 glucan substrate zymosan A than
toward linear beta-1,3 glucan substrates. Sometimes
these two domains are found associated with other
domains such as in the Catenulispora acidiphila DSM
44928 carbohydrate binding family 6 protein in which
they are positioned N-terminal of a carbohydrate binding
module, family 6 (CBM_6) domain. In the
Cellulosimicrobium cellulans, glucan
endo-1,3-beta-glucosidase, they are positioned
N-terminal of a RICIN, carbohydrate-binding domain, and
in the Salinispora tropica CNB-440, coagulation factor
5/8 C-terminal domain (FA58C) protein, they are
positioned C-terminal of two FA58C domains which are
proposed to function as cell surface-attached,
carbohydrate-binding domain. This FA58C-containing
protein has an internal peptide deletion (of approx. 44
residues) in the LPHase domain II.
Length = 319
Score = 29.2 bits (66), Expect = 4.3
Identities = 11/53 (20%), Positives = 15/53 (28%), Gaps = 6/53 (11%)
Query: 201 IERNTRI--PCK----QTQTFTTYADNQPAVTIQVFEGERAMTKDNNLLGTFD 247
RI P K Y D+ T +VF + N+ G
Sbjct: 192 YGAPYRILAPGKGPFKPGGANANYFDSYIPSTQEVFGCAGPLAGGNDTQGQIQ 244
>gnl|CDD|226532 COG4046, COG4046, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 368
Score = 29.0 bits (65), Expect = 4.7
Identities = 21/62 (33%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 68 SIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDAK---LDKSAIHDVVLV 124
IE A+ GI I + EE + + VEKAL+ K L+ A D VLV
Sbjct: 298 FIERIAVKYGIPLDAVIIKMSPEEAITQMPEDIYGAVEKALERVKDIILNNEAPGDSVLV 357
Query: 125 GG 126
G
Sbjct: 358 VG 359
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 29.3 bits (66), Expect = 5.0
Identities = 15/116 (12%), Positives = 45/116 (38%), Gaps = 7/116 (6%)
Query: 277 AKDTSSGKSQNITIKNDKGRLSKEEIDRMINDAERYKDEDERQKERISA----RNNLEAY 332
K + + + + +EE++ + + E ++ E +E + + L+
Sbjct: 721 LKRELAALEEELEQLQSRLEELEEELEELEEELEELQERLEELEEELESLEEALAKLKEE 780
Query: 333 VFNVKQALDNAGNKL--TESEKSRCREECDATLKWLDNNTLADKEEYQDKLQQLQK 386
+ +++ +L E E DA + L + +E + ++++L++
Sbjct: 781 IEELEEKRQALQEELEELEEELEEAERRLDALEREL-ESLEQRRERLEQEIEELEE 835
>gnl|CDD|235766 PRK06276, PRK06276, acetolactate synthase catalytic subunit;
Reviewed.
Length = 586
Score = 29.0 bits (65), Expect = 5.4
Identities = 8/31 (25%), Positives = 18/31 (58%)
Query: 363 LKWLDNNTLADKEEYQDKLQQLQKSCMPLMS 393
L L + +K E+ +++++L+K +P M
Sbjct: 329 LAELMKKEIKNKSEWLERVKKLKKESIPRMD 359
>gnl|CDD|173855 cd08490, PBP2_NikA_DppA_OppA_like_3, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 470
Score = 29.1 bits (66), Expect = 5.5
Identities = 26/98 (26%), Positives = 35/98 (35%), Gaps = 23/98 (23%)
Query: 225 VTIQVFEGERAMTKDNNLLGTFDLT--GIPPAPRGVPKIDVTFDLDANGILNVTAKDTSS 282
V I+V E + + G FDL AP G D + LN D S
Sbjct: 352 VEIRVVEYDAIEEDLLD--GDFDLALYSRNTAPTG----------DPDYFLN---SDYKS 396
Query: 283 GKSQNITIKNDKGRLSKEEIDRMINDAERYKDEDERQK 320
S N G S E+D +I + D +ER +
Sbjct: 397 DGSYNY------GGYSNPEVDALIEELRTEFDPEERAE 428
>gnl|CDD|218986 pfam06317, Arena_RNA_pol, Arenavirus RNA polymerase. This family
consists of several Arenavirus RNA polymerase proteins
(EC:2.7.7.48).
Length = 2206
Score = 29.2 bits (66), Expect = 5.8
Identities = 30/120 (25%), Positives = 48/120 (40%), Gaps = 21/120 (17%)
Query: 25 VSHLAEEFKRK--YKKD-MSVNPRALRRLRTAAERAKRTLSSSTEASIEIDALYDGIDFY 81
VS LAE FK K YK D + + + L + S ++++ E +LY+ +D
Sbjct: 846 VSQLAERFKTKGKYKLDPEDYDYKIQKNLSSLVS-----GSKKSKSNREELSLYEELD-- 898
Query: 82 TKISRARFEELCSDLFRSTLQPVEKALQDAKLDKSAIHDVVLVGGSTRIPKVQSLLQNFF 141
E SD F + VEK L +K+ KS + + I ++ L
Sbjct: 899 ---------EDQSDYFDEIKESVEKTL--SKMRKSRKAKSGNLKNTKSINDLERLWAPKG 947
>gnl|CDD|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family. This model
represents a subfamily of RNA splicing factors including
the Pad-1 protein (N. crassa), CAPER (M. musculus) and
CC1.3 (H.sapiens). These proteins are characterized by
an N-terminal arginine-rich, low complexity domain
followed by three (or in the case of 4 H. sapiens
paralogs, two) RNA recognition domains (rrm: pfam00706).
These splicing factors are closely related to the U2AF
splicing factor family (TIGR01642). A homologous gene
from Plasmodium falciparum was identified in the course
of the analysis of that genome at TIGR and was included
in the seed.
Length = 457
Score = 28.7 bits (64), Expect = 6.3
Identities = 19/87 (21%), Positives = 33/87 (37%), Gaps = 10/87 (11%)
Query: 278 KDTSSGKSQNITIKNDKGRLSK--EEIDRMINDAERYKD--------EDERQKERISARN 327
+D G+ +N T ++DKGR R + R +D R R
Sbjct: 3 RDRERGRLRNDTRRSDKGRERSRRRSRSRDRSRRRRDRDYYRGRRGRSRSRSPNRYYRPR 62
Query: 328 NLEAYVFNVKQALDNAGNKLTESEKSR 354
+Y + +++ N LTE+E+
Sbjct: 63 GDRSYRRDDRRSGRNTKEPLTEAERDD 89
>gnl|CDD|233961 TIGR02644, Y_phosphoryl, pyrimidine-nucleoside phosphorylase. In
general, members of this protein family are designated
pyrimidine-nucleoside phosphorylase, enzyme family EC
2.4.2.2, as in Bacillus subtilis, and more narrowly as
the enzyme family EC 2.4.2.4, thymidine phosphorylase
(alternate name: pyrimidine phosphorylase), as in
Escherichia coli. The set of proteins encompassed by
this model is designated subfamily rather than equivalog
for this reason; the protein name from this model should
be used when TIGR02643 does not score above trusted
cutoff [Purines, pyrimidines, nucleosides, and
nucleotides, Other].
Length = 405
Score = 28.4 bits (64), Expect = 7.1
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 288 ITIKNDKGRLSKEEIDRMIN 307
I K D +LS EEI+ IN
Sbjct: 5 IRKKRDGKKLSDEEINFFIN 24
>gnl|CDD|241285 cd01254, PH_PLD, Phospholipase D pleckstrin homology (PH) domain.
PLD hydrolyzes phosphatidylcholine to phosphatidic acid
(PtdOH), which can bind target proteins. PLD contains a
PH domain, a PX domain and four conserved PLD signature
domains. The PLD PH domain is specific for
bisphosphorylated inositides. PH domains have diverse
functions, but in general are involved in targeting
proteins to the appropriate cellular location or in the
interaction with a binding partner. They share little
sequence conservation, but all have a common fold, which
is electrostatically polarized. Less than 10% of PH
domains bind phosphoinositide phosphates (PIPs) with
high affinity and specificity. PH domains are
distinguished from other PIP-binding domains by their
specific high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved across
all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 134
Score = 27.6 bits (62), Expect = 7.3
Identities = 13/53 (24%), Positives = 16/53 (30%), Gaps = 10/53 (18%)
Query: 165 AILSGDQSSAIQDVLLVDVTPLSLGIETAG---GVMTKLI----ERNTRIPCK 210
A + S I DV L D + G L R +I CK
Sbjct: 70 AYVDDPDSGKILDVFLFDK---EFKVSRGKKETGSRHGLKITNLSRTLKIKCK 119
>gnl|CDD|187715 cd08646, FMT_core_Met-tRNA-FMT_N, Methionyl-tRNA formyltransferase,
N-terminal hydrolase domain. Methionyl-tRNA
formyltransferase (Met-tRNA-FMT), N-terminal
formyltransferase domain. Met-tRNA-FMT transfers a
formyl group from N-10 formyltetrahydrofolate to the
amino terminal end of a methionyl-aminoacyl-tRNA acyl
moiety, yielding formyl-Met-tRNA. Formyl-Met-tRNA plays
essential role in protein translation initiation by
forming complex with IF2. The formyl group plays a dual
role in the initiator identity of N-formylmethionyl-tRNA
by promoting its recognition by IF2 and by impairing its
binding to EFTU-GTP. The N-terminal domain contains a
Rossmann fold and it is the catalytic domain of the
enzyme.
Length = 204
Score = 28.2 bits (64), Expect = 7.4
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 13/56 (23%)
Query: 159 GAA-VQAAILSGDQSSA--IQ---------DVLLVDVTPLSLGIETAGGVMTKLIE 202
GAA +Q AIL+GD+ + I D+L + P+ +TAG ++ KL E
Sbjct: 116 GAAPIQRAILNGDKETGVTIMKMDEGLDTGDILAQEEVPID-PDDTAGELLDKLAE 170
>gnl|CDD|235351 PRK05137, tolB, translocation protein TolB; Provisional.
Length = 435
Score = 28.3 bits (64), Expect = 8.0
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 208 PCKQTQTFTTYADNQPAVTIQVFEGERAMTKDNNLLGTFDLTGIPPAPRGVPKID---VT 264
P +Q T+ +YA+ +P V + E + L+G F G+ APR P D V
Sbjct: 211 PNRQEITYMSYANGRPRVYLLDLETGQ-----RELVGNF--PGMTFAPRFSP--DGRKVV 261
Query: 265 FDLDANGILNVTAKDTSSGKSQNIT 289
L G ++ D SG + +T
Sbjct: 262 MSLSQGGNTDIYTMDLRSGTTTRLT 286
>gnl|CDD|177400 PHA02571, a-gt.4, hypothetical protein; Provisional.
Length = 109
Score = 27.0 bits (60), Expect = 8.9
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 18 EDFDNRLVSHLAEEFKRKYKKDMSVNPRALRRLRTAAERA 57
E+ + L + E ++K K + N R ++RL+ AE A
Sbjct: 17 EELLSELQARNEAEAEKKAAKILKKNRREIKRLKKHAEEA 56
>gnl|CDD|222104 pfam13401, AAA_22, AAA domain.
Length = 124
Score = 26.9 bits (60), Expect = 9.3
Identities = 15/60 (25%), Positives = 21/60 (35%), Gaps = 4/60 (6%)
Query: 52 TAAERAKRTLSSSTEASIEIDALYDGIDFYTKISRARFEELCSDLFRSTLQPVEKALQDA 111
T R R L + +E +L D KI L L T + +A+ DA
Sbjct: 19 TLLRRLARQLPNRRVVYVEAPSLGTPKDLLRKI----LRALGLPLSGGTTAELLEAILDA 74
>gnl|CDD|218636 pfam05557, MAD, Mitotic checkpoint protein. This family consists
of several eukaryotic mitotic checkpoint (Mitotic arrest
deficient or MAD) proteins. The mitotic spindle
checkpoint monitors proper attachment of the bipolar
spindle to the kinetochores of aligned sister chromatids
and causes a cell cycle arrest in prometaphase when
failures occur. Multiple components of the mitotic
spindle checkpoint have been identified in yeast and
higher eukaryotes. In S.cerevisiae, the existence of a
Mad1-dependent complex containing Mad2, Mad3, Bub3 and
Cdc20 has been demonstrated.
Length = 722
Score = 28.4 bits (63), Expect = 9.8
Identities = 15/62 (24%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 291 KNDKGRLSKEEIDRMINDAERYKDEDERQKERISARNNLEAYVFNVKQALDNAGNKLTES 350
K D+ + +KE I R+ ND + + + LE+ + +++ L+ +L E+
Sbjct: 155 KEDQLKEAKESISRIKNDLSEMQCRAQNADTEL---KLLESELEELREQLEECQKELAEA 211
Query: 351 EK 352
EK
Sbjct: 212 EK 213
>gnl|CDD|220112 pfam09110, HAND, HAND. The HAND domain adopts a secondary
structure consisting of four alpha helices, three of
which (H2, H3, H4) form an L-like configuration. Helix
H2 runs antiparallel to helices H3 and H4, packing
closely against helix H4, whilst helix H1 reposes in the
concave surface formed by these three helices and runs
perpendicular to them. The domain confers DNA and
nucleosome binding properties to the protein.
Length = 109
Score = 26.9 bits (60), Expect = 9.9
Identities = 14/48 (29%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 275 VTAKDTSSGKSQNITIKNDKGRLSKEEIDRMINDAERYKDEDERQKER 322
V D G ++ + K +L +E+ID +AE +E+E +K+R
Sbjct: 61 VPLDDVGDGDEEDEEEREAKRKLEQEKID----NAEPLTEEEEEEKQR 104
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.314 0.131 0.363
Gapped
Lambda K H
0.267 0.0772 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,924,386
Number of extensions: 2022344
Number of successful extensions: 2304
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2212
Number of HSP's successfully gapped: 112
Length of query: 418
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 319
Effective length of database: 6,546,556
Effective search space: 2088351364
Effective search space used: 2088351364
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 60 (26.8 bits)