RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10019
(388 letters)
>gnl|CDD|240341 PTZ00272, PTZ00272, heat shock protein 83 kDa (Hsp83); Provisional.
Length = 701
Score = 324 bits (832), Expect = e-105
Identities = 161/238 (67%), Positives = 202/238 (84%)
Query: 21 ETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKELE 80
ETFAFQAEI QLMSLIINTFYSNKEIFLRELISN+SDA DKIRY+SLTDPS L L
Sbjct: 3 ETFAFQAEINQLMSLIINTFYSNKEIFLRELISNASDACDKIRYQSLTDPSVLGESPRLC 62
Query: 81 IKIIPDKESRTLTIIDSGIGMTKADLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVG 140
I+++PDKE++TLT+ D+GIGMTKADLVNNLGTIA+SGTKAFMEAL+AG D+SMIGQFGVG
Sbjct: 63 IRVVPDKENKTLTVEDNGIGMTKADLVNNLGTIARSGTKAFMEALEAGGDMSMIGQFGVG 122
Query: 141 FYSAYLVADKVTVHSKHNDDEQYIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKEDQAEY 200
FYSAYLVAD+VTV SK+N DE Y+WESSAGG+FTI + RGT++ L++KEDQ EY
Sbjct: 123 FYSAYLVADRVTVTSKNNSDESYVWESSAGGTFTITSTPESDMKRGTRITLHLKEDQMEY 182
Query: 201 LEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIED 258
LE +++KE++KKHS+FIGY I+L+VEK EKE+ +++EE+ +K E+ E+ K ++++
Sbjct: 183 LEPRRLKELIKKHSEFIGYDIELMVEKTTEKEVTDEDEEDTKKADEDGEEPKVEEVKE 240
Score = 147 bits (373), Expect = 4e-39
Identities = 95/268 (35%), Positives = 141/268 (52%), Gaps = 48/268 (17%)
Query: 165 WESSAGGSFTIKPDHGEQLGRGTKMVLYIKEDQAEYLEEKKIKEIVKKHSQ---FIGYPI 221
+ + +G T D+ ++ G K + YI D + LE E ++ F+ PI
Sbjct: 438 YSTESGEEMTTLKDYVTRMKAGQKSIYYITGDSKKKLETSPFIEQARRRGLEVLFMTEPI 497
Query: 222 KLLVEKEREK--------------ELEEDEEEEKEKDKEENE------------DDKTPK 255
V ++ + EE EEE++++++E+ DK K
Sbjct: 498 DEYVMQQVKDFEDKKFACLTKEGVHFEESEEEKQQREEEKAACEKLCKTMKEVLGDKVEK 557
Query: 256 I---------------EDYGWTANMERIMKAQALRDTSTMGYMAAKKHLEINPDHNIIET 300
+ ++GW+A+ME+IM+ QALRD+S YM +KK +E+NP H II+
Sbjct: 558 VIVSERLSTSPCILVTSEFGWSAHMEQIMRNQALRDSSMAQYMMSKKTMELNPRHPIIKE 617
Query: 301 LRQKADADKNDKAVKDLVMLLFETALLSSGFGLEDPQVHAARIHRMIKLGLGIDDDDEVP 360
LR++ AD+NDKAVKDLV LLF+T+LL+SGF LEDP +A RI+RMIKLGL +D+++E
Sbjct: 618 LRRRVGADENDKAVKDLVFLLFDTSLLTSGFQLEDPTGYAERINRMIKLGLSLDEEEEEA 677
Query: 361 AEASKAADVDITPVDGDSEDASRMEEVD 388
AEA A G S ME+VD
Sbjct: 678 AEAPVAETAPAEVTAG----TSSMEQVD 701
>gnl|CDD|235366 PRK05218, PRK05218, heat shock protein 90; Provisional.
Length = 613
Score = 301 bits (773), Expect = 4e-97
Identities = 117/214 (54%), Positives = 160/214 (74%), Gaps = 6/214 (2%)
Query: 20 VETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKEL 79
+ET FQAE+ QL+ L+I++ YSNKEIFLRELISN+SDA+DK+R+E+LTDP+ E +L
Sbjct: 3 METGEFQAEVKQLLHLMIHSLYSNKEIFLRELISNASDAIDKLRFEALTDPALYEGDGDL 62
Query: 80 EIKIIPDKESRTLTIIDSGIGMTKADLVNNLGTIAKSGTKAFMEALQ--AGADISMIGQF 137
+I+I DKE+RTLTI D+GIGMT+ +++ NLGTIAKSGTK F+E L+ D +IGQF
Sbjct: 63 KIRISFDKEARTLTISDNGIGMTREEVIENLGTIAKSGTKEFLEKLKGDQKKDSQLIGQF 122
Query: 138 GVGFYSAYLVADKVTVHSKH--NDDEQYIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKE 195
GVGFYSA++VADKVTV ++ E WES G +TI+ E+ RGT++ L++KE
Sbjct: 123 GVGFYSAFMVADKVTVITRSAGPAAEAVRWESDGEGEYTIEE--IEKEERGTEITLHLKE 180
Query: 196 DQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKER 229
D+ E+L+E +I+ I+KK+S FI PIKL E+E
Sbjct: 181 DEDEFLDEWRIRSIIKKYSDFIPVPIKLEKEEEE 214
Score = 71.3 bits (176), Expect = 2e-13
Identities = 43/150 (28%), Positives = 68/150 (45%), Gaps = 28/150 (18%)
Query: 221 IKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIED------------------YGWT 262
+ L E E EKE +E+ EEE + E ++ K++D +
Sbjct: 474 LDLGKEDEEEKEEKEEAEEEFKPLLERLKEALGDKVKDVRLSHRLTDSPACLVADEGDMS 533
Query: 263 ANMERIMKAQALRDTSTMGYMAAKKHLEINPDHNIIETLRQKADADKNDKAVKDLVMLLF 322
ME+++KA +K LEINP+H +++ L +AD K KDL LL+
Sbjct: 534 TQMEKLLKAAG------QEVPESKPILEINPNHPLVKKLADEADEAK----FKDLAELLY 583
Query: 323 ETALLSSGFGLEDPQVHAARIHRMIKLGLG 352
+ ALL+ G LEDP R++ ++ L
Sbjct: 584 DQALLAEGGSLEDPAAFVKRLNELLLKLLA 613
>gnl|CDD|223403 COG0326, HtpG, Molecular chaperone, HSP90 family [Posttranslational
modification, protein turnover, chaperones].
Length = 623
Score = 297 bits (763), Expect = 2e-95
Identities = 121/226 (53%), Positives = 168/226 (74%), Gaps = 3/226 (1%)
Query: 20 VETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKEL 79
ET FQAE+ QL+ L+I++ YSNKEIFLRELISN+SDA+DK+R+E+L+DP E +L
Sbjct: 4 QETRGFQAEVKQLLDLMIHSLYSNKEIFLRELISNASDAIDKLRFEALSDPELGEGDSDL 63
Query: 80 EIKIIPDKESRTLTIIDSGIGMTKADLVNNLGTIAKSGTKAFMEAL-QAGADISMIGQFG 138
I+I DK+++TLTI D+GIGMTK +++ NLGTIAKSGTK F+E+L + D +IGQFG
Sbjct: 64 RIRISFDKDNKTLTISDNGIGMTKDEVIENLGTIAKSGTKEFLESLSEDQKDSDLIGQFG 123
Query: 139 VGFYSAYLVADKVTVHSKHND-DEQYIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKEDQ 197
VGFYSA++VADKVTV ++ DE Y WES G +T++ E RGT++ L++KE++
Sbjct: 124 VGFYSAFMVADKVTVITRSAGEDEAYHWESDGEGEYTVEDIDKEPR-RGTEITLHLKEEE 182
Query: 198 AEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEK 243
E+LEE +++EIVKK+S I YPI + EKE+++E+ E E K K
Sbjct: 183 DEFLEEWRLREIVKKYSDHIAYPIYIEGEKEKDEEVIEWETINKAK 228
Score = 75.4 bits (186), Expect = 9e-15
Identities = 46/165 (27%), Positives = 68/165 (41%), Gaps = 42/165 (25%)
Query: 216 FIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIE------------------ 257
F G P K + + E EEE E D EE + + P +E
Sbjct: 471 FEGKPFKSI---TKGDLDLELLEEEDEADSEEEKKEFKPLLERVKEILGDKVKDVRLSHR 527
Query: 258 -----------DYGWTANMERIMKAQALRDTSTMGYMAAKKHLEINPDHNIIETLRQKAD 306
+ MER++KAQ +KK LEINP+H +++ L D
Sbjct: 528 LTDSPACLTTDGADLSTQMERLLKAQGQEVP------ESKKILEINPNHPLVKKLASLED 581
Query: 307 ADKNDKAVKDLVMLLFETALLSSGFGLEDPQVHAARIHRMIKLGL 351
+ +V DLV LL++ ALL+ G LEDP R++ ++ L
Sbjct: 582 ----EASVADLVELLYDQALLAEGGPLEDPAAFIERLNDLLSRLL 622
>gnl|CDD|185466 PTZ00130, PTZ00130, heat shock protein 90; Provisional.
Length = 814
Score = 231 bits (590), Expect = 9e-69
Identities = 129/244 (52%), Positives = 176/244 (72%), Gaps = 8/244 (3%)
Query: 20 VETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKEL 79
+E +Q E+ +LM +I+N+ Y+ KE+FLRELISN++DAL+KIR+ SL+D S L +K+L
Sbjct: 65 IEQHQYQTEVTRLMDIIVNSLYTQKEVFLRELISNAADALEKIRFLSLSDESVLGEEKKL 124
Query: 80 EIKIIPDKESRTLTIIDSGIGMTKADLVNNLGTIAKSGTKAFMEAL-QAGADISMIGQFG 138
EI+I +KE L+I D+GIGMTK DL+NNLGTIAKSGT F+EA+ ++G D+S+IGQFG
Sbjct: 125 EIRISANKEKNILSITDTGIGMTKEDLINNLGTIAKSGTSNFLEAISKSGGDMSLIGQFG 184
Query: 139 VGFYSAYLVADKVTVHSKHNDDEQYIWESSAGGSFTIKPD-HGEQLGRGTKMVLYIKEDQ 197
VGFYSA+LVADKV V++K+N+DEQYIWES+A FTI D G L RGT++ L++KED
Sbjct: 185 VGFYSAFLVADKVIVYTKNNNDEQYIWESTADAKFTIYKDPRGSTLKRGTRISLHLKEDA 244
Query: 198 AEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKD------KEENEDD 251
+ +KK+ +++ K+SQFI YPI LL E +E+ D +E E D K E DD
Sbjct: 245 TNLMNDKKLVDLISKYSQFIQYPIYLLHENVYTEEVLADIAKEMENDPNYDSVKVEETDD 304
Query: 252 KTPK 255
K
Sbjct: 305 PNKK 308
Score = 53.9 bits (129), Expect = 1e-07
Identities = 63/259 (24%), Positives = 123/259 (47%), Gaps = 48/259 (18%)
Query: 160 DEQYIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKED-QAEYLEEKKIKEIVKKHSQFIG 218
D+++I+ +S D E L + ++ ++ K++ +L E + V++ ++ G
Sbjct: 548 DQKFIYYASG--------DSYEYLSKIPQLQIFKKKNIDVVFLTESVDESCVQRVQEYDG 599
Query: 219 YPIKLLVEKEREKELEEDEEEEKEKDKE----------ENEDDKTPKIE----------- 257
K + + E EL EDE++++EK K+ + ++ K+E
Sbjct: 600 KKFKSIQKGEITFELTEDEKKKEEKVKKMYKALIDVISDTLRNQIFKVEISRRLVDAPCA 659
Query: 258 ----DYGWTANMERIMKAQALRDTSTMGYMAAKKHLEINPDHNIIETLRQKADADKNDKA 313
++G + ME++MK + ++ + M+ +K LEINPDH I+ L +++ ++ D
Sbjct: 660 VVSTEWGLSGQMEKLMKIN-VNNSDQIKAMSGQKILEINPDHPIMIDLLKRSVSNPKDSQ 718
Query: 314 VKDLVMLLFETALLSSGFGLEDPQVHAARIHRMIKLGLGIDD----DDEVPA--EASKAA 367
+ + + +++++A L+SGF LED A ++ I LG+D+ DD PA E K
Sbjct: 719 LTESIKIIYQSAKLASGFDLEDTADLAQIVYDHINQKLGVDNNLKIDDLDPAIFETKKIE 778
Query: 368 DVDITPVDGDSEDASRMEE 386
DS D + E
Sbjct: 779 -------QEDSPDGQKFHE 790
>gnl|CDD|215774 pfam00183, HSP90, Hsp90 protein.
Length = 529
Score = 188 bits (479), Expect = 8e-55
Identities = 105/233 (45%), Positives = 140/233 (60%), Gaps = 34/233 (14%)
Query: 181 EQLGRGTKMVLYIKEDQAEYL-------EEKKIKEIVKKHSQFIGYPIKLLVEKEREKEL 233
E+L + VLY+ + EY E KK+ + K+ + L E E EK+
Sbjct: 306 ERLKKKGYEVLYMTDPIDEYAMQQLKEFEGKKLVNVTKEGLK--------LEESEEEKKK 357
Query: 234 EEDEEEEKEKDKEENEDDKTPKIED------------------YGWTANMERIMKAQALR 275
E+ ++E E+ + +D K+E YGW+ANMERIMKAQALR
Sbjct: 358 REELKKEFEELCKWMKDILGDKVEKVVVSNRLVDSPCALVTSQYGWSANMERIMKAQALR 417
Query: 276 DTSTMGYMAAKKHLEINPDHNIIETLRQKADADKNDKAVKDLVMLLFETALLSSGFGLED 335
D+S YM++KK LEINP H II+ LR++ +ADKNDK VKDL LL+ETALL+SGF LED
Sbjct: 418 DSSMSAYMSSKKTLEINPRHPIIKELRKRVEADKNDKTVKDLARLLYETALLTSGFSLED 477
Query: 336 PQVHAARIHRMIKLGLGIDDDDEVPAEASKAADVDITPVDGDSEDASRMEEVD 388
P+ A+RI+RMIKLGL ID+D+EV E +A P + D+ED S+MEEVD
Sbjct: 478 PKAFASRIYRMIKLGLSIDEDEEVEEEDEEAEVETTEPAEEDAED-SKMEEVD 529
Score = 88.3 bits (219), Expect = 5e-19
Identities = 36/60 (60%), Positives = 50/60 (83%)
Query: 199 EYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIED 258
EYLEE++IKE+VKKHS+FI YPI L VEKE EKE+ ++EEEE++++K+E E+ T K E+
Sbjct: 1 EYLEERRIKELVKKHSEFINYPIYLWVEKEVEKEVPDEEEEEEKEEKKEEEEKTTDKEEE 60
>gnl|CDD|237603 PRK14083, PRK14083, HSP90 family protein; Provisional.
Length = 601
Score = 110 bits (278), Expect = 2e-26
Identities = 60/207 (28%), Positives = 108/207 (52%), Gaps = 11/207 (5%)
Query: 24 AFQAEIAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKELEIKI 83
FQ ++ ++ L+ YS+ +++REL+ N+ DA I DP+ + +E+
Sbjct: 4 RFQVDLRGVIDLLSRHLYSSPRVYVRELLQNAVDA---ITARRALDPT-APGRIRIEL-- 57
Query: 84 IPDKESRTLTIIDSGIGMTKADLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYS 143
D TL + D+GIG+T+ ++ L TI +S + E L + +GQFG+G S
Sbjct: 58 -TDAGGGTLIVEDNGIGLTEEEVHEFLATIGRSSKRD--ENLGFARN-DFLGQFGIGLLS 113
Query: 144 AYLVADKVTVHSKHNDDEQYI-WESSAGGSFTIKPDHGEQLGRGTKMVLYIKEDQAEYLE 202
+LVAD++ V S+ D + W A G+++++ E+ GT + L + D E+LE
Sbjct: 114 CFLVADEIVVVSRSAKDGPAVEWRGKADGTYSVRKLETERAEPGTTVYLRPRPDAEEWLE 173
Query: 203 EKKIKEIVKKHSQFIGYPIKLLVEKER 229
+ ++E+ KK+ + PI++ EK
Sbjct: 174 RETVEELAKKYGSLLPVPIRVEGEKGG 200
>gnl|CDD|217081 pfam02518, HATPase_c, Histidine kinase-, DNA gyrase B-, and
HSP90-like ATPase. This family represents the
structurally related ATPase domains of histidine kinase,
DNA gyrase B and HSP90.
Length = 111
Score = 60.8 bits (148), Expect = 1e-11
Identities = 28/154 (18%), Positives = 50/154 (32%), Gaps = 43/154 (27%)
Query: 43 NKEIFLRELISNSSDALDKIRYESLTDPSRLESKKELEIKIIPDKESRTLTIIDSGIGMT 102
E LR+++SN D K E+E+ + D +T+ D+GIG+
Sbjct: 1 GDEDRLRQVLSNLLDNAIKHAPAG----------GEIEVTLERDGGRLRITVEDNGIGIP 50
Query: 103 KADLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVADKVTVHSKHNDDEQ 162
DL K F + + +G G+G + +
Sbjct: 51 PEDL-----------PKIFEPFFRTDSSSRKVGGTGLGLSIVRKLVELH----------- 88
Query: 163 YIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKED 196
GG+ T++ + G GT + +
Sbjct: 89 -------GGTITVES----EPGGGTTFTFTLPLE 111
>gnl|CDD|214643 smart00387, HATPase_c, Histidine kinase-like ATPases. Histidine
kinase-, DNA gyrase B-, phytochrome-like ATPases.
Length = 111
Score = 56.1 bits (136), Expect = 5e-10
Identities = 24/136 (17%), Positives = 41/136 (30%), Gaps = 27/136 (19%)
Query: 43 NKEIFLRELISNSSDALDKIRYESLTDPSRLESKKELEIKIIPDKESRTLTIIDSGIGMT 102
LR+++SN D K E + + + D + +T+ D+G G+
Sbjct: 1 GDPDRLRQVLSNLLDNAIKYTPEG----------GRITVTLERDGDHVEITVEDNGPGIP 50
Query: 103 KADLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVADKVTVHSKHNDDEQ 162
DL K F + IG G+G + + +
Sbjct: 51 PEDL-----------EKIFEPFFRTDKRSRKIGGTGLGLSIVKKLVELHGGEISVESEPG 99
Query: 163 YIWESSAGGSFTIKPD 178
G +FTI
Sbjct: 100 ------GGTTFTITLP 109
>gnl|CDD|238030 cd00075, HATPase_c, Histidine kinase-like ATPases; This family
includes several ATP-binding proteins for example:
histidine kinase, DNA gyrase B, topoisomerases, heat
shock protein HSP90, phytochrome-like ATPases and DNA
mismatch repair proteins.
Length = 103
Score = 50.3 bits (121), Expect = 4e-08
Identities = 17/118 (14%), Positives = 35/118 (29%), Gaps = 29/118 (24%)
Query: 45 EIFLRELISNSSDALDKIRYESLTDPSRLESKKELEIKIIPDKESRTLTIIDSGIGMTKA 104
+ L L+SN+ E + I + D + + + D+G G+ +
Sbjct: 2 QQVLLNLLSNAIKHTP-------------EGGGRITISVERDGDHLEIRVEDNGPGIPEE 48
Query: 105 DLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYLVAD----KVTVHSKHN 158
DL + G G+G + + ++ V S+
Sbjct: 49 DLERIFERFSDGSRS------------RKGGGTGLGLSIVKKLVELHGGRIEVESEPG 94
>gnl|CDD|222246 pfam13589, HATPase_c_3, Histidine kinase-, DNA gyrase B-, and
HSP90-like ATPase. This family represents,
additionally, the structurally related ATPase domains of
histidine kinase, DNA gyrase B and HSP90.
Length = 134
Score = 45.7 bits (109), Expect = 3e-06
Identities = 33/124 (26%), Positives = 54/124 (43%), Gaps = 30/124 (24%)
Query: 41 YSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKELEIKIIPDKESRTLTIIDSGIG 100
Y+ E + ELI NS DA ++I I PD+ ++I D+G G
Sbjct: 1 YTL-EDAIAELIDNSIDA----------------DATNVKISIDPDRGEDGISIEDNGGG 43
Query: 101 MTKADLVNNL--GTIAKSGTKAFMEALQAGADISMIGQFGVG-FYSAYLVADKVTVHSKH 157
M+ +L N L G +K G + D + +G+ G+G ++ + K+TV SK
Sbjct: 44 MSYEELRNALKLGRSSKEGER----------DSTTLGRKGIGMKLASLSLGRKLTVTSKK 93
Query: 158 NDDE 161
+
Sbjct: 94 EGES 97
>gnl|CDD|223448 COG0371, GldA, Glycerol dehydrogenase and related enzymes [Energy
production and conversion].
Length = 360
Score = 38.0 bits (89), Expect = 0.006
Identities = 22/72 (30%), Positives = 34/72 (47%), Gaps = 11/72 (15%)
Query: 174 TIKPDHGEQLGRGTKMVLYIKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKEL 233
T HGE++ GT + LY+ E +E +KI++ +KK +G P L EL
Sbjct: 263 THHALHGEKVAYGTLVQLYLHGKNWEEIEARKIRDFLKK----VGLPTTL-------AEL 311
Query: 234 EEDEEEEKEKDK 245
D++E E
Sbjct: 312 GLDDDEVIEALT 323
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 36.5 bits (84), Expect = 0.025
Identities = 15/29 (51%), Positives = 25/29 (86%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTP 254
E+E E+E EE+EEEE+E+++EE E+++ P
Sbjct: 865 EEEEEEEEEEEEEEEEEEEEEEEEENEEP 893
Score = 35.4 bits (81), Expect = 0.058
Identities = 15/32 (46%), Positives = 26/32 (81%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTPKIE 257
E+E E+E EE+EEEE+E+++EE E+++ +E
Sbjct: 866 EEEEEEEEEEEEEEEEEEEEEEEENEEPLSLE 897
Score = 33.4 bits (76), Expect = 0.21
Identities = 14/26 (53%), Positives = 23/26 (88%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDD 251
E+E E+E EE+EEEE+E+++EE E++
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEE 889
Score = 32.3 bits (73), Expect = 0.57
Identities = 13/27 (48%), Positives = 23/27 (85%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDK 252
+ E E+E EE+EEEE+E+++EE E+++
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEE 888
Score = 31.9 bits (72), Expect = 0.68
Identities = 13/26 (50%), Positives = 23/26 (88%)
Query: 227 KEREKELEEDEEEEKEKDKEENEDDK 252
+E E+E EE+EEEE+E+++EE E+++
Sbjct: 864 EEEEEEEEEEEEEEEEEEEEEEEEEE 889
Score = 31.5 bits (71), Expect = 0.82
Identities = 13/31 (41%), Positives = 25/31 (80%)
Query: 228 EREKELEEDEEEEKEKDKEENEDDKTPKIED 258
+ E+E EE+EEEE+E+++EE E+++ + E+
Sbjct: 862 DSEEEEEEEEEEEEEEEEEEEEEEEEEENEE 892
>gnl|CDD|237762 PRK14598, PRK14598, peptide deformylase; Provisional.
Length = 187
Score = 33.2 bits (76), Expect = 0.12
Identities = 18/41 (43%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 299 ETLRQKADADKN-DKAVKDLVMLLFETALLSSGFGLEDPQV 338
E LRQKA K D +++L+ +FE+ +SG GL PQV
Sbjct: 11 EVLRQKAKPLKGVDAEIEELIASMFESMYNASGIGLAAPQV 51
>gnl|CDD|236873 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 34.1 bits (79), Expect = 0.14
Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 13/47 (27%)
Query: 192 YIKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEE 238
YI ED A Y EK + L EREKE +ED+
Sbjct: 581 YINEDIARYKAEKDKNIVS-------------LNYAEREKENDEDDA 614
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 33.7 bits (78), Expect = 0.14
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 14/72 (19%)
Query: 187 TKMVLYIKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKE 246
TK + I E EKK +E K+ + +K+ EE+EEE+++K++E
Sbjct: 409 TKKIKKIVEK-----AEKKREEEKKEKKK---------KAFAGKKKEEEEEEEKEKKEEE 454
Query: 247 ENEDDKTPKIED 258
+ E+++ + E
Sbjct: 455 KEEEEEEAEEEK 466
Score = 29.9 bits (68), Expect = 2.3
Identities = 21/76 (27%), Positives = 37/76 (48%), Gaps = 16/76 (21%)
Query: 193 IKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDE---------EEEKEK 243
+ E++ E+L K K I EK+RE+E +E + EEE+E+
Sbjct: 394 LTEEEIEFLTGSKKATKKIKK-------IVEKAEKKREEEKKEKKKKAFAGKKKEEEEEE 446
Query: 244 DKEENEDDKTPKIEDY 259
+KE+ E++K + E+
Sbjct: 447 EKEKKEEEKEEEEEEA 462
>gnl|CDD|221175 pfam11705, RNA_pol_3_Rpc31, DNA-directed RNA polymerase III subunit
Rpc31. RNA polymerase III contains seventeen subunits
in yeasts and in human cells. Twelve of these are akin
to RNA polymerase I or II and the other five are RNA pol
III-specific, and form the functionally distinct groups
(i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31,
Rpc34 and Rpc82 form a cluster of enzyme-specific
subunits that contribute to transcription initiation in
S.cerevisiae and H.sapiens. There is evidence that these
subunits are anchored at or near the N-terminal Zn-fold
of Rpc1, itself prolonged by a highly conserved but RNA
polymerase III-specific domain.
Length = 221
Score = 32.0 bits (73), Expect = 0.40
Identities = 12/40 (30%), Positives = 27/40 (67%)
Query: 221 IKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYG 260
KL + +++ KELE ++ +E+++ EE E+++ + ED+
Sbjct: 151 EKLSMLEKKLKELEAEDVDEEDEKDEEEEEEEEEEDEDFD 190
Score = 27.8 bits (62), Expect = 9.4
Identities = 13/27 (48%), Positives = 22/27 (81%)
Query: 225 VEKEREKELEEDEEEEKEKDKEENEDD 251
V++E EK+ EE+EEEE+E + +++DD
Sbjct: 168 VDEEDEKDEEEEEEEEEEDEDFDDDDD 194
>gnl|CDD|217393 pfam03154, Atrophin-1, Atrophin-1 family. Atrophin-1 is the
protein product of the dentatorubral-pallidoluysian
atrophy (DRPLA) gene. DRPLA OMIM:125370 is a progressive
neurodegenerative disorder. It is caused by the
expansion of a CAG repeat in the DRPLA gene on
chromosome 12p. This results in an extended
polyglutamine region in atrophin-1, that is thought to
confer toxicity to the protein, possibly through
altering its interactions with other proteins. The
expansion of a CAG repeat is also the underlying defect
in six other neurodegenerative disorders, including
Huntington's disease. One interaction of expanded
polyglutamine repeats that is thought to be pathogenic
is that with the short glutamine repeat in the
transcriptional coactivator CREB binding protein, CBP.
This interaction draws CBP away from its usual nuclear
location to the expanded polyglutamine repeat protein
aggregates that are characteristic of the polyglutamine
neurodegenerative disorders. This interferes with
CBP-mediated transcription and causes cytotoxicity.
Length = 979
Score = 32.4 bits (73), Expect = 0.57
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 222 KLLVEKEREKELEEDEEEEKEKDKEEN 248
K E+EREKE E++ E E+E++ E
Sbjct: 595 KAREEREREKEKEKEREREREREAERA 621
>gnl|CDD|226894 COG4499, COG4499, Predicted membrane protein [Function unknown].
Length = 434
Score = 32.1 bits (73), Expect = 0.58
Identities = 14/56 (25%), Positives = 29/56 (51%)
Query: 203 EKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIED 258
KK+++ KK + + + KE + +EE ++K KE+ ++DK + +D
Sbjct: 375 NKKLQDYTKKLGEVKDETDASEEAEAKAKEEKLKQEENEKKQKEQADEDKEKRQKD 430
>gnl|CDD|221275 pfam11861, DUF3381, Domain of unknown function (DUF3381). This
domain is functionally uncharacterized. This domain is
found in eukaryotes. This presumed domain is typically
between 156 to 174 amino acids in length. This domain is
found associated with pfam07780, pfam01728.
Length = 154
Score = 30.7 bits (70), Expect = 0.70
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 4/49 (8%)
Query: 204 KKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDK 252
K K+++K + KLL ++EKE EE+EE E E+ EE + D+
Sbjct: 78 KDFKKLLKWRKKVR----KLLGLDKKEKEEEEEEEVEVEELDEEEQIDE 122
>gnl|CDD|130767 TIGR01706, NAPA, periplasmic nitrate reductase, large subunit.
This model represents the large subunit of a family of
nitrate reductases found in proteobacteria which are
localized to the periplasm. This subunit binds
molybdopterin and contains a twin-arginine motif at the
N-terminus. The protein associates with NapB, a soluble
heme-containing protein and NapC, a membrane-bound
cytochrome c. The periplasmic nitrate reductases are not
involved in the assimilation of nitrogen, and are not
directly involved in the formation of electrochemical
gradients (i.e. respiration) either. Rather, the purpose
of this enzyme is either dissimilatory (i.e. to dispose
of excess reductive equivalents) or indirectly
respiratory by virtue of the consumption of electrons
derived from NADH via the proton translocating NADH
dehydrogenase. The enzymes from Alicagenes eutrophus and
Paracoccus pantotrophus have been characterized. In E.
coli (as well as other organisms) this gene is part of a
large nitrate reduction operon (napFDAGHBC) [Energy
metabolism, Aerobic, Energy metabolism, Electron
transport, Central intermediary metabolism, Nitrogen
metabolism].
Length = 830
Score = 31.8 bits (72), Expect = 0.80
Identities = 36/138 (26%), Positives = 51/138 (36%), Gaps = 33/138 (23%)
Query: 59 LDKIRYESLTDPSRLESKKELEIKIIPDKESRTLTIIDSGIGM-TKADLVNNL------- 110
L+K S ++LE EL D + +++ G T+ NN+
Sbjct: 340 LEKTSELSGVPKAKLEQLAELYA----DPNRKVMSLWTMGFNQHTRGVWANNMVYNLHLL 395
Query: 111 -GTIAKSGTKAFMEALQAGADISMIGQFG-------VGFYSAYLVADKVTVHSKHNDDEQ 162
G IA G F S+ GQ VG +S L AD V + KH + +
Sbjct: 396 TGKIATPGNSPF----------SLTGQPSACGTAREVGTFSHRLPADMVVTNPKHREIAE 445
Query: 163 YIWESSAGGSFTIKPDHG 180
IW+ AG TI G
Sbjct: 446 KIWKIPAG---TIPEKPG 460
>gnl|CDD|182075 PRK09786, PRK09786, endodeoxyribonuclease RUS; Reviewed.
Length = 120
Score = 29.8 bits (67), Expect = 0.85
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 8/45 (17%)
Query: 302 RQKADADKNDKAVKDLVMLLFETALLSSGFGLEDPQVHAARIHRM 346
R++ D D KA D AL +GF L+D QV R+ +M
Sbjct: 66 RRRRDLDNLQKAAFD--------ALTKAGFWLDDAQVVDYRVVKM 102
>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota). DNA
Topoisomerase I (eukaryota), DNA topoisomerase V,
Vaccina virus topoisomerase, Variola virus
topoisomerase, Shope fibroma virus topoisomeras.
Length = 391
Score = 31.2 bits (71), Expect = 0.93
Identities = 21/104 (20%), Positives = 44/104 (42%), Gaps = 12/104 (11%)
Query: 174 TIKPDHGEQLGRGTKMVLYIKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKEL 233
T+ H + + + + + +K + + E++ + +K E++ EK
Sbjct: 270 TVSKTHEKSMEKLQEKIKALKYQLKRLKKMILLFEMISDLKR----KLKSKFERDNEKLD 325
Query: 234 EEDEEEEKEKDKEENEDDKTPKIEDYGWTANMERIMKAQALRDT 277
E +E++KEK KEE + + ++E ERI K +
Sbjct: 326 AEVKEKKKEKKKEEKKKKQIERLE--------ERIEKLEVQATD 361
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 31.2 bits (71), Expect = 0.95
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 220 PIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDY 259
+L EKE ++ L+E + K K +EE + + K+E
Sbjct: 550 KEELQREKEEKEALKEQKRLRKLKKQEEKKKKELEKLEKA 589
>gnl|CDD|221244 pfam11818, DUF3340, C-terminal domain of tail specific protease
(DUF3340). This presumed domain is found at the
C-terminus of tail specific proteases. Its function is
unknown. This family is found in bacteria and
eukaryotes. This presumed domain is typically between 88
to 187 amino acids in length.
Length = 139
Score = 29.9 bits (68), Expect = 0.96
Identities = 17/55 (30%), Positives = 26/55 (47%), Gaps = 13/55 (23%)
Query: 192 YIKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKE 246
Y+ ED A EE+ K + L E ER+ E EEDE++ +++ E
Sbjct: 56 YLNEDIAWLKEERDDKTVS-------------LNEAERKAEREEDEKKRLKRENE 97
>gnl|CDD|233035 TIGR00585, mutl, DNA mismatch repair protein MutL. All proteins in
this family for which the functions are known are
involved in the process of generalized mismatch repair.
This family is based on the phylogenomic analysis of JA
Eisen (1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 312
Score = 30.7 bits (70), Expect = 1.2
Identities = 35/191 (18%), Positives = 68/191 (35%), Gaps = 68/191 (35%)
Query: 48 LRELISNSSDA-LDKIRYESLTDPSRLESKKELEIKIIPDKESRTLTIIDSGIGMTKADL 106
++EL+ NS DA +I E K +E+ D+G G+ K DL
Sbjct: 27 VKELVENSLDAGATRIDVEIEEG-----GLKLIEVS-------------DNGSGIDKEDL 68
Query: 107 V-----------NNLGTIAKSGTKAFM-EALQAGADISMIGQFGVGFYSAYLVADKVTVH 154
+ + + T F EAL + + +S ++T+
Sbjct: 69 PLACERHATSKIQSFEDLERIETLGFRGEALASISSVS-----------------RLTIT 111
Query: 155 SKHNDDEQYIWESSAGGSF--TIKPDHGEQLGRGTK-MVL-----------YIKEDQAEY 200
+K + + +++ G +IKP GT V ++K + E+
Sbjct: 112 TKTSAADGLAYQALLEGGMIESIKPAPRP---VGTTVEVRDLFYNLPVRRKFLKSPKKEF 168
Query: 201 LEEKKIKEIVK 211
+KI ++++
Sbjct: 169 ---RKILDVLQ 176
>gnl|CDD|222667 pfam14308, DnaJ-X, X-domain of DnaJ-containing. IN certain plant
and yeast proteins, the DnaJ-1 proteins have a
three-domain structure. The x-domain lies between the
N-terminal DnaJ and the C-terminal Z domains. The exact
function is not known.
Length = 204
Score = 30.2 bits (69), Expect = 1.4
Identities = 13/44 (29%), Positives = 19/44 (43%)
Query: 221 IKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYGWTAN 264
+ E K+LEE E E++ E E+ T KI W +
Sbjct: 99 LDAQSTMEEMKKLEEKGGELTEEELAEMEEKVTGKILAAAWAIS 142
>gnl|CDD|237761 PRK14597, PRK14597, peptide deformylase; Provisional.
Length = 166
Score = 29.7 bits (67), Expect = 1.5
Identities = 14/39 (35%), Positives = 18/39 (46%), Gaps = 1/39 (2%)
Query: 301 LRQKADADKN-DKAVKDLVMLLFETALLSSGFGLEDPQV 338
LR+KA D +K + + ET G GL PQV
Sbjct: 11 LRKKAKPVTKFDDNLKKTIEEMIETMYHYDGVGLAAPQV 49
>gnl|CDD|237799 PRK14715, PRK14715, DNA polymerase II large subunit; Provisional.
Length = 1627
Score = 31.0 bits (70), Expect = 1.5
Identities = 16/50 (32%), Positives = 27/50 (54%)
Query: 221 IKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYGWTANMERIMK 270
+K L EK+ EK+ E+ EE + E+ EE E+++ + N+E K
Sbjct: 276 LKELKEKKEEKDEEKSEEVKTEEVDEEFEEEEKGFYYELYEKVNIEANKK 325
>gnl|CDD|238271 cd00487, Pep_deformylase, Polypeptide or peptide deformylase; a
family of metalloenzymes that catalyzes the removal of
the N-terminal formyl group in a growing polypeptide
chain following translation initiation during protein
synthesis in prokaryotes. These enzymes utilize Fe(II)
as the catalytic metal ion, which can be replaced with a
nickel or cobalt ion with no loss of activity. There are
two types of peptide deformylases, types I and II, which
differ in structure only in the outer surface of the
domain. Because these enzymes are essential only in
prokaryotes (although eukaryotic gene sequences have
been found), they are a target for a new class of
antibacterial agents.
Length = 141
Score = 29.4 bits (67), Expect = 1.6
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 299 ETLRQKA-DADKNDKAVKDLVMLLFETALLSSGFGLEDPQVHAARIH-RMIKLGLGIDDD 356
LR+KA ++ D +K L+ +FET + G GL PQ+ + R+ + + +++
Sbjct: 7 PVLRKKAKPVEEFDDELKQLIDDMFETMYAAPGVGLAAPQIG---VSKRIFVIDVPDEEN 63
Query: 357 DEVP 360
E P
Sbjct: 64 KEPP 67
>gnl|CDD|187625 cd05367, SPR-like_SDR_c, sepiapterin reductase (SPR)-like,
classical (c) SDRs. Human SPR, a member of the SDR
family, catalyzes the NADP-dependent reduction of
sepiaptern to 7,8-dihydrobiopterin (BH2). In addition to
SPRs, this subgroup also contains Bacillus cereus yueD,
a benzil reductase, which catalyzes the stereospecific
reduction of benzil to (S)-benzoin. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human
15-hydroxyprostaglandin dehydrogenase (15-PGDH)
numbering). In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) contributing
to the active site; while substrate binding is in the
C-terminal region, which determines specificity. The
standard reaction mechanism is a 4-pro-S hydride
transfer and proton relay involving the conserved Tyr
and Lys, a water molecule stabilized by Asn, and
nicotinamide. Extended SDRs have additional elements in
the C-terminal region, and typically have a TGXXGXXG
cofactor binding motif. Complex (multidomain) SDRs such
as ketoreductase domains of fatty acid synthase have a
GGXGXXG NAD(P)-binding motif and an altered active site
motif (YXXXN). Fungal type ketoacyl reductases have a
TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 241
Score = 29.9 bits (68), Expect = 1.7
Identities = 11/60 (18%), Positives = 23/60 (38%)
Query: 328 SSGFGLEDPQVHAARIHRMIKLGLGIDDDDEVPAEASKAADVDITPVDGDSEDASRMEEV 387
S G G + R + + L ++ + + +T V D DA+ +E++
Sbjct: 8 SRGIGRALAEELLKRGSPSVVVLLARSEEPLQELKEELRPGLRVTTVKADLSDAAGVEQL 67
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 30.7 bits (69), Expect = 1.7
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTPKIED 258
E+E E+E +E EEEE E ++EE E + E+
Sbjct: 452 EEEEEEEEQESEEEEGEDEEEEEEVEADNGSEE 484
Score = 28.7 bits (64), Expect = 7.1
Identities = 12/34 (35%), Positives = 26/34 (76%)
Query: 225 VEKEREKELEEDEEEEKEKDKEENEDDKTPKIED 258
VE+E E+E EE+EEE++ +++E ++++ ++E
Sbjct: 445 VEEEEEEEEEEEEEEQESEEEEGEDEEEEEEVEA 478
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 30.4 bits (69), Expect = 1.7
Identities = 9/36 (25%), Positives = 20/36 (55%)
Query: 218 GYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKT 253
GYP+ + K +E+E ++E +E+++ E +
Sbjct: 387 GYPLAEALSKVKEEERPREKEGTEEEERREITVYEK 422
>gnl|CDD|227615 COG5296, COG5296, Transcription factor involved in TATA site
selection and in elongation by RNA polymerase II
[Transcription].
Length = 521
Score = 30.4 bits (68), Expect = 2.1
Identities = 12/50 (24%), Positives = 20/50 (40%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYGWTANMERIMKAQALR 275
E +R K+ +E EE E+ +E +ED T + + R
Sbjct: 168 ELQRFKDYKELEESEQGLQEEYTPSYAEEAVEDISRTDDFAELYDFNQCR 217
>gnl|CDD|181335 PRK08264, PRK08264, short chain dehydrogenase; Validated.
Length = 238
Score = 29.9 bits (68), Expect = 2.1
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 11/62 (17%)
Query: 335 DPQVHAARIHRMIKLGLGIDDDDEVPAEASKAADVDI-----------TPVDGDSEDASR 383
DP+ R++ L L + D V A A A+DV I + + EDA R
Sbjct: 40 DPESVTDLGPRVVPLQLDVTDPASVAAAAEAASDVTILVNNAGIFRTGSLLLEGDEDALR 99
Query: 384 ME 385
E
Sbjct: 100 AE 101
>gnl|CDD|113290 pfam04514, BTV_NS2, Bluetongue virus non-structural protein NS2.
This family includes NS2 proteins from other members of
the Orbivirus genus. NS2 is a non-specific
single-stranded RNA-binding protein that forms large
homomultimers and accumulates in viral inclusion bodies
of infected cells. Three RNA binding regions have been
identified in Bluetongue virus serotype 17 at residues
2-11, 153-166 and 274-286. NS2 multimers also possess
nucleotidyl phosphatase activity. The precise function
of NS2 is not known, but it may be involved in the
transport and condensation of viral mRNAs.
Length = 363
Score = 29.8 bits (67), Expect = 2.3
Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 6/95 (6%)
Query: 193 IKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKERE--KELEEDEEEEKEKDKE---- 246
E + +E++ + ++ ++ + L E+ R+ KE E +E E++ D E
Sbjct: 204 TPETSKQDQKEERRAAVERRLAELVEMINWNLEERRRDLRKEQELEENVERDSDDEDEHG 263
Query: 247 ENEDDKTPKIEDYGWTANMERIMKAQALRDTSTMG 281
E+ +D K E Y + +ERI + + ++D
Sbjct: 264 EDSEDGETKPESYITSEYIERISEIRKMKDERLSS 298
>gnl|CDD|234080 TIGR02987, met_A_Alw26, type II restriction m6 adenine DNA
methyltransferase, Alw26I/Eco31I/Esp3I family. Members
of this family are the m6-adenine DNA methyltransferase
protein, or domain of a fusion protein that also carries
m5 cytosine methyltransferase activity, of type II
restriction systems of the Alw26I/Eco31I/Esp3I family. A
methyltransferase of this family is alway accompanied by
a type II restriction endonuclease from the
Alw26I/Eco31I/Esp3I family (TIGR02986) and by an
adenine-specific modification methyltransferase. Members
of this family are unusual in that regions of similarity
to homologs outside this family are circularly permuted
[DNA metabolism, Restriction/modification].
Length = 524
Score = 29.7 bits (67), Expect = 2.6
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 8/74 (10%)
Query: 220 PIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDY--------GWTANMERIMKA 271
P L ++E E E EK D + DD ++ Y G R+ +
Sbjct: 121 PYGRLKPDKKELTNIETLEYEKYIDFLKEFDDLLSRVLPYSDPIRKYAGVGTEYSRVFEE 180
Query: 272 QALRDTSTMGYMAA 285
+L + GY++
Sbjct: 181 ISLEIANKNGYVSI 194
>gnl|CDD|219563 pfam07767, Nop53, Nop53 (60S ribosomal biogenesis). This nucleolar
family of proteins are involved in 60S ribosomal
biogenesis. They are specifically involved in the
processing beyond the 27S stage of 25S rRNA maturation.
This family contains sequences that bear similarity to
the glioma tumour suppressor candidate region gene 2
protein (p60). This protein has been found to interact
with herpes simplex type 1 regulatory proteins.
Length = 387
Score = 29.7 bits (67), Expect = 2.9
Identities = 18/62 (29%), Positives = 30/62 (48%)
Query: 194 KEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKT 253
K + E +EEKK++++ + S+ LL E + + E E D+E E + E E
Sbjct: 212 KRQELERVEEKKLEKMAPEASRLDEMSEGLLEESDDDGEEESDDESAWEGFESEYEPINK 271
Query: 254 PK 255
P
Sbjct: 272 PV 273
>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin. Nucleoplasmins are also
known as chromatin decondensation proteins. They bind to
core histones and transfer DNA to them in a reaction
that requires ATP. This is thought to play a role in the
assembly of regular nucleosomal arrays.
Length = 146
Score = 28.4 bits (64), Expect = 3.8
Identities = 10/30 (33%), Positives = 25/30 (83%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTPK 255
E + ++E EE+E++E++ D++E+E++++P
Sbjct: 113 ESDDDEEDEEEEDDEEDDDEDESEEEESPV 142
>gnl|CDD|220383 pfam09756, DDRGK, DDRGK domain. This is a family of proteins of
approximately 300 residues, found in plants and
vertebrates. They contain a highly conserved DDRGK
motif.
Length = 189
Score = 28.5 bits (64), Expect = 4.0
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 188 KMVLYIKEDQAEYLEEKKIKEIVKKHSQFIG-YPIKLLVEKEREKELEEDEEEEKEKDKE 246
K+ Q EE++ +E K + G + +E+EREK+ EE+E +E+E+
Sbjct: 10 KLEEKQARRQQREAEEEEREERKKLEEKREGERKEEEELEEEREKKKEEEERKEREEQAR 69
Query: 247 ENEDD 251
+ +++
Sbjct: 70 KEQEE 74
>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P. This model
represents the L12P protein of the large (50S) subunit
of the archaeal ribosome.
Length = 105
Score = 27.7 bits (62), Expect = 4.1
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 226 EKEREKELEEDEEEEKEKDKEENED 250
E+E EE+EEEE+E+++ E E
Sbjct: 72 AAAAEEEEEEEEEEEEEEEESEEEA 96
Score = 27.3 bits (61), Expect = 5.4
Identities = 17/51 (33%), Positives = 28/51 (54%)
Query: 201 LEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDD 251
LE I+E +KK + E EE+EEEE+E+++EE+E++
Sbjct: 45 LEGVNIEEAIKKAAAAPVAAAAAAAAAAAAAEEEEEEEEEEEEEEEESEEE 95
>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated.
Length = 330
Score = 29.1 bits (66), Expect = 4.2
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 225 VEKEREKELEEDEEEEKEKDKEE 247
E+E EE+EEEE+E+ EE
Sbjct: 297 QAAAAEEEEEEEEEEEEEEPSEE 319
>gnl|CDD|113997 pfam05246, DUF735, Protein of unknown function (DUF735). This
family consists of several uncharacterized Borrelia
burgdorferi (Lyme disease spirochete) proteins of
unknown function.
Length = 211
Score = 28.4 bits (63), Expect = 4.6
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 2/92 (2%)
Query: 29 IAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPSRLESKKELEIKI-IPDK 87
IA L+ I N F++ KE+ L+ + +N + I++ + L K L I +
Sbjct: 51 IAILILQIFNAFHAKKEL-LKNITNNIDAIIFAIKHIGTDESFILIFKAFLHADIEVSSN 109
Query: 88 ESRTLTIIDSGIGMTKADLVNNLGTIAKSGTK 119
E I G K++ + AK G K
Sbjct: 110 EDAAGEIDIKLKGNIKSNFEFFIAPSAKKGKK 141
>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457). This is
a family of uncharacterized proteins.
Length = 449
Score = 29.2 bits (65), Expect = 4.7
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 222 KLLVEKEREKELEEDEEEEKEKDKEENEDD 251
KL E E E EED++EE + D ++ ++D
Sbjct: 40 KLGKEAEEEAMEEEDDDEEDDDDDDDEDED 69
>gnl|CDD|218223 pfam04712, Radial_spoke, Radial spokehead-like protein. This
family includes the radial spoke head proteins RSP4 and
RSP6 from Chlamydomonas reinhardtii, and several
eukaryotic homologues, including mammalian RSHL1, the
protein product of a familial ciliary dyskinesia
candidate gene.
Length = 481
Score = 28.9 bits (65), Expect = 4.7
Identities = 13/29 (44%), Positives = 23/29 (79%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTP 254
+K+ E+E E++EEEE+E++ EE E ++ P
Sbjct: 346 QKDEEEEQEDEEEEEEEEEPEEPEPEEGP 374
Score = 28.1 bits (63), Expect = 8.9
Identities = 10/28 (35%), Positives = 21/28 (75%)
Query: 230 EKELEEDEEEEKEKDKEENEDDKTPKIE 257
++ +E+EE+E E+++EE E+ + P+ E
Sbjct: 344 PEQKDEEEEQEDEEEEEEEEEPEEPEPE 371
>gnl|CDD|171490 PRK12425, PRK12425, fumarate hydratase; Provisional.
Length = 464
Score = 29.1 bits (65), Expect = 4.8
Identities = 23/88 (26%), Positives = 46/88 (52%), Gaps = 20/88 (22%)
Query: 268 IMKAQALRDTSTMGYMAAKKHLEIN---P--DHNIIETLRQKADADKNDKAVKDLVMLLF 322
++ Q + + +T+G+ A++ HL++N P HN+++++R AD +N F
Sbjct: 333 MLACQVMGNDATIGFAASQGHLQLNVFKPVIIHNLLQSIRLLADGCRN-----------F 381
Query: 323 ETALLSSGFGLE-DPQVHAARIHRMIKL 349
+ ++ GLE D + AA + R + L
Sbjct: 382 QQHCVA---GLEPDAEQMAAHLERGLML 406
>gnl|CDD|224389 COG1472, BglX, Beta-glucosidase-related glycosidases [Carbohydrate
transport and metabolism].
Length = 397
Score = 28.9 bits (65), Expect = 5.0
Identities = 16/64 (25%), Positives = 26/64 (40%), Gaps = 4/64 (6%)
Query: 98 GIGMTKADLVNNLGTIAKSGTKAFMEALQAGADISMIGQFGVGFYSAYL-VADKVTVHSK 156
G+ ++ + + S AL+AG DI ++ Y AYL V + V +
Sbjct: 243 GVVISDDLSMKAIAAAHGSAADRAEAALKAGVDIVLVCN---ELYEAYLVVLELVGLSEA 299
Query: 157 HNDD 160
DD
Sbjct: 300 RLDD 303
>gnl|CDD|212510 cd11724, TP_methylase_like, Uncharacterized subfamily of S-AdoMet
dependent tetrapyrrole methylases. TP-methylases use
S-AdoMet (S-adenosyl-L-methionine or SAM) in the
methylation of diverse substrates. Most members catalyze
various methylation steps in cobalamin (vitamin B12)
biosynthesis, other members like Diphthine synthase and
Ribosomal RNA small subunit methyltransferase I (RsmI)
act on other substrates. The function of this subfamily
is not known.
Length = 255
Score = 28.4 bits (64), Expect = 5.3
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 193 IKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEEN 248
I + A+YL+ K + E K F Y K E EK E EEEK++ +EE
Sbjct: 36 IVKRFADYLKGKPVLEDPWKL--FWHYGGKPWENLEAEKSPREAFEEEKKRQREEF 89
>gnl|CDD|217286 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomerase I, DNA
binding fragment. Topoisomerase I promotes the
relaxation of DNA superhelical tension by introducing a
transient single-stranded break in duplex DNA and are
vital for the processes of replication, transcription,
and recombination. This family may be more than one
structural domain.
Length = 215
Score = 28.3 bits (64), Expect = 5.8
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 5/42 (11%)
Query: 220 PIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYGW 261
PI E E+EK+ +EEK+ KEE + + P YG+
Sbjct: 90 PIYEYFEAEKEKKKAM-SKEEKKAIKEEKDKLEEP----YGY 126
>gnl|CDD|221775 pfam12794, MscS_TM, Mechanosensitive ion channel inner membrane
domain 1. The small mechanosensitive channel, MscS, is
a part of the turgor-driven solute efflux system that
protects bacteria from lysis in the event of osmotic
shock. The MscS protein alone is sufficient to form a
functional mechanosensitive channel gated directly by
tension in the lipid bilayer. The MscS proteins are
heptamers of three transmembrane subunits with seven
converging M3 domains, and this domain is one of the
inner membrane domains.
Length = 339
Score = 28.7 bits (65), Expect = 5.8
Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 9/52 (17%)
Query: 224 LVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYGWTANMERIMKAQALR 275
K R + L + EEE+E + E + P++ ++E I AQ+LR
Sbjct: 263 AKAK-RAEILAQRAEEEEESSEGAAETIEEPEL-------DLETI-SAQSLR 305
>gnl|CDD|234767 PRK00448, polC, DNA polymerase III PolC; Validated.
Length = 1437
Score = 29.0 bits (66), Expect = 5.8
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 196 DQAEYLEEKKIKEIVKKHSQFI 217
D+ +L E+ KEIV +++ I
Sbjct: 778 DEFAFLGEELAKEIVVENTNKI 799
>gnl|CDD|221324 pfam11933, DUF3451, Domain of unknown function (DUF3451). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 199 to 238 amino acids in length. This domain is
found associated with pfam06512, pfam00520. This domain
has a conserved ADD sequence motif.
Length = 222
Score = 28.2 bits (63), Expect = 5.9
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 227 KEREKELEEDEEEEKEKDKEENEDDKTPKIE 257
KER +++++EE EE + +K PK E
Sbjct: 12 KERRNRNDKNKKEEHSIGSEEGDSEKEPKSE 42
>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p. This subfamily
includes archaeal L12p, the protein that is functionally
equivalent to L7/L12 in bacteria and the P1 and P2
proteins in eukaryotes. L12p is homologous to P1 and P2
but is not homologous to bacterial L7/L12. It is located
in the L12 stalk, with proteins L10, L11, and 23S rRNA.
L12p is the only protein in the ribosome to occur as
multimers, always appearing as sets of dimers. Recent
data indicate that most archaeal species contain six
copies of L12p (three homodimers), while eukaryotes have
four copies (two heterodimers), and bacteria may have
four or six copies (two or three homodimers), depending
on the species. The organization of proteins within the
stalk has been characterized primarily in bacteria,
where L7/L12 forms either two or three homodimers and
each homodimer binds to the extended C-terminal helix of
L10. L7/L12 is attached to the ribosome through L10 and
is the only ribosomal protein that does not directly
interact with rRNA. Archaeal L12p is believed to
function in a similar fashion. However, hybrid ribosomes
containing the large subunit from E. coli with an
archaeal stalk are able to bind archaeal and eukaryotic
elongation factors but not bacterial elongation factors.
In several mesophilic and thermophilic archaeal species,
the binding of 23S rRNA to protein L11 and to the
L10/L12p pentameric complex was found to be
temperature-dependent and cooperative.
Length = 106
Score = 27.1 bits (60), Expect = 6.1
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 201 LEEKKIKEIVKKHSQFI--GYPIKLLVEKEREKELEEDEEEEKEKDKEENEDD 251
LEE I E +KK + P EK E++EE++KE++KEE E++
Sbjct: 45 LEEVNIDEAIKKAAVAAAAAAPAAAAAAAAEEKAEEKEEEKKKEEEKEEEEEE 97
>gnl|CDD|224418 COG1501, COG1501, Alpha-glucosidases, family 31 of glycosyl
hydrolases [Carbohydrate transport and metabolism].
Length = 772
Score = 28.9 bits (65), Expect = 6.3
Identities = 11/60 (18%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 163 YIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKEDQAEY--LEEKKIKEIVKKHSQFIGYP 220
++SA GSF + + + ++ Q +Y + K++++K++ G P
Sbjct: 205 LFVDNSAYGSFDV------GSEEYSYVQFSVEGGQLDYYVIAGPTPKDVLEKYTDLTGKP 258
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 28.7 bits (65), Expect = 6.3
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 222 KLLVEKEREKELEEDEEEEKEKDKEENEDDKTPK 255
KL ++ + ++ E EE EK K++ E
Sbjct: 413 KLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKA 446
>gnl|CDD|235665 PRK05996, motB, flagellar motor protein MotB; Validated.
Length = 423
Score = 28.5 bits (64), Expect = 6.4
Identities = 13/39 (33%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 220 PIKLLVEKEREKELEE---DEEEEKEKDKEENEDDKTPK 255
PIKL K EK L++ E E++ K + E+D+ +
Sbjct: 70 PIKLTDRKPSEKGLKDPVDGAEGEQKPGKSKFEEDQRVE 108
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 28.7 bits (64), Expect = 6.5
Identities = 16/86 (18%), Positives = 37/86 (43%)
Query: 194 KEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKT 253
++++ + EEKK K+ K P + EK KE E+++E++ E+ ++ E+ K
Sbjct: 107 EKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPRDREEEKKR 166
Query: 254 PKIEDYGWTANMERIMKAQALRDTST 279
++ + ++
Sbjct: 167 ERVRAKSRPKKPPKKKPPNKKKEPPE 192
>gnl|CDD|239572 cd03490, Topoisomer_IB_N_1, Topoisomer_IB_N_1: A subgroup of the
N-terminal DNA binding fragment found in eukaryotic DNA
topoisomerase (topo) IB. Topo IB proteins include the
monomeric yeast and human topo I and heterodimeric topo
I from Leishmania donvanni. Topo I enzymes are divided
into: topo type IA (bacterial) and type IB
(eukaryotic). Topo I relaxes superhelical tension in
duplex DNA by creating a single-strand nick, the broken
strand can then rotate around the unbroken strand to
remove DNA supercoils and, the nick is religated,
liberating topo I. These enzymes regulate the
topological changes that accompany DNA replication,
transcription and other nuclear processes. Human topo I
is the target of a diverse set of anticancer drugs
including camptothecins (CPTs). CPTs bind to the topo
I-DNA complex and inhibit religation of the
single-strand nick, resulting in the accumulation of
topo I-DNA adducts. In addition to differences in
structure and some biochemical properties,
Trypanosomatid parasite topos I differ from human topo I
in their sensitivity to CPTs and other classical topo I
inhibitors. Trypanosomatid topos I have putative roles
in organizing the kinetoplast DNA network unique to
these parasites. This family may represent more than
one structural domain.
Length = 217
Score = 27.9 bits (62), Expect = 6.9
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 220 PIKLLVEKEREKELEEDEEEEKEKDKEENE 249
IK +E+E+EK+ ++EE++ K KE +
Sbjct: 88 LIKNHLEEEKEKKKNLNKEEKEAKKKERAK 117
>gnl|CDD|217443 pfam03234, CDC37_N, Cdc37 N terminal kinase binding. Cdc37 is a
molecular chaperone required for the activity of
numerous eukaryotic protein kinases. This domain
corresponds to the N terminal domain which binds
predominantly to protein kinases and is found N terminal
to the Hsp (Heat shocked protein) 90-binding domain
pfam08565. Expression of a construct consisting of only
the N-terminal domain of Saccharomyces pombe Cdc37
results in cellular viability. This indicates that
interactions with the cochaperone Hsp90 may not be
essential for Cdc37 function.
Length = 172
Score = 27.8 bits (62), Expect = 7.3
Identities = 22/97 (22%), Positives = 44/97 (45%), Gaps = 8/97 (8%)
Query: 150 KVTVHSKHNDDEQYIWESSAGGSFTIKPDHGEQLGRGTKMVLYIKEDQAEYLEEKK---I 206
++ + + D S +FT K + + +MV + + + ++EK +
Sbjct: 68 LLSELKEESLDSSQAVMKSLNENFTDKENVEPEQPTYNEMVEDLFDQVKDEVDEKNGAAL 127
Query: 207 KEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEK 243
E ++KH + +KE K+L+E E+EEK+K
Sbjct: 128 IEELQKHRDKL-----KKEQKELLKKLDELEKEEKKK 159
>gnl|CDD|203450 pfam06438, HasA, Heme-binding protein A (HasA). Free iron is
limited in vertebrate hosts, thus an alternative to
siderophores has been developed by pathogenic bacteria
to access host iron bound in protein complexes. HasA is
a secreted hemophore that has the ability to obtain iron
from hemoglobin. Once bound to HasA, the heme is
shuttled to the receptor HasR, which releases the heme
into the bacterium.
Length = 202
Score = 27.8 bits (62), Expect = 7.3
Identities = 9/40 (22%), Positives = 15/40 (37%)
Query: 140 GFYSAYLVADKVTVHSKHNDDEQYIWESSAGGSFTIKPDH 179
GF + +HS +DD +I + + P H
Sbjct: 44 GFSGGSFDGSQYAIHSTASDDYAFIAGGNLHYTLFSNPAH 83
>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase
chain; Provisional.
Length = 1033
Score = 28.6 bits (64), Expect = 7.3
Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 8/109 (7%)
Query: 225 VEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYGWTANMERIM-----KAQALRDTST 279
V + +E +E+E E + + DD ED + + R+ +
Sbjct: 5 VNTQANEEEDEEELEAVARSAGSDSDDDEVPAEDEDEDEEDDEEAESPAKAEISKREKAR 64
Query: 280 MGYMAAKKHLEINPDHNIIETLRQKADADKNDKAVKDLVMLLFETALLS 328
+ + +K EI I+E DAD N+K L LL +T + +
Sbjct: 65 LKELKKQKKQEIQ---KILEQQNAAIDADMNNKGKGRLKYLLQQTEIFA 110
>gnl|CDD|238356 cd00660, Topoisomer_IB_N, Topoisomer_IB_N: N-terminal DNA binding
fragment found in eukaryotic DNA topoisomerase (topo) IB
proteins similar to the monomeric yeast and human topo I
and heterodimeric topo I from Leishmania donvanni. Topo
I enzymes are divided into: topo type IA (bacterial)
and type IB (eukaryotic). Topo I relaxes superhelical
tension in duplex DNA by creating a single-strand nick,
the broken strand can then rotate around the unbroken
strand to remove DNA supercoils and, the nick is
religated, liberating topo I. These enzymes regulate the
topological changes that accompany DNA replication,
transcription and other nuclear processes. Human topo I
is the target of a diverse set of anticancer drugs
including camptothecins (CPTs). CPTs bind to the topo
I-DNA complex and inhibit re-ligation of the
single-strand nick, resulting in the accumulation of
topo I-DNA adducts. In addition to differences in
structure and some biochemical properties,
Trypanosomatid parasite topo I differ from human topo I
in their sensitivity to CPTs and other classical topo I
inhibitors. Trypanosomatid topos I play putative roles
in organizing the kinetoplast DNA network unique to
these parasites. This family may represent more than
one structural domain.
Length = 215
Score = 28.0 bits (63), Expect = 7.4
Identities = 21/63 (33%), Positives = 32/63 (50%), Gaps = 13/63 (20%)
Query: 203 EKKIKEIVKKHSQFIGYPIKLLVEKEREKEL----EEDEEEEKEKDKEENEDDKTPKIED 258
K+ K I+KK S+ PI E+E+EK+ EE + ++EK+K E E
Sbjct: 72 TKEEKHIIKKLSKCDFTPIYQYFEEEKEKKKAMSKEEKKAIKEEKEKLE---------EP 122
Query: 259 YGW 261
YG+
Sbjct: 123 YGY 125
>gnl|CDD|217829 pfam03985, Paf1, Paf1. Members of this family are components of
the RNA polymerase II associated Paf1 complex. The Paf1
complex functions during the elongation phase of
transcription in conjunction with Spt4-Spt5 and
Spt16-Pob3i.
Length = 431
Score = 28.5 bits (64), Expect = 7.5
Identities = 9/26 (34%), Positives = 16/26 (61%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDD 251
+ E E E++EEE++ + EE E +
Sbjct: 366 DFEEVDEDEDEEEEQRSDEHEEEEGE 391
>gnl|CDD|237629 PRK14160, PRK14160, heat shock protein GrpE; Provisional.
Length = 211
Score = 27.8 bits (62), Expect = 8.0
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 189 MVLYIKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEEN 248
M K+ + E +EE KE K KE + E EE E+EE +D EE+
Sbjct: 1 MEKECKDAKHENMEEDCCKENENKEED---------KGKEEDLEFEEIEKEEIIEDSEES 51
Query: 249 EDDKTPKIED 258
+ K +++D
Sbjct: 52 NEVKIEELKD 61
>gnl|CDD|179139 PRK00843, egsA, NAD(P)-dependent glycerol-1-phosphate
dehydrogenase; Reviewed.
Length = 350
Score = 27.9 bits (63), Expect = 8.3
Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 9/44 (20%)
Query: 179 HGEQLGRGTKMVLYIKEDQAEYLEEKKIKEIVKKHSQFIGYPIK 222
HGEQ G GT +++Y+ + +KI++ +KK IG P
Sbjct: 267 HGEQCGVGTIIMMYLHGG-----DWRKIRDALKK----IGAPTT 301
>gnl|CDD|117592 pfam09026, Cenp-B_dimeris, Centromere protein B dimerisation
domain. The centromere protein B (CENP-B) dimerisation
domain is composed of two alpha-helices, which are
folded into an antiparallel configuration. Dimerisation
of CENP-B is mediated by this domain, in which monomers
dimerise to form a symmetrical, antiparallel, four-helix
bundle structure with a large hydrophobic patch in which
23 residues of one monomer form van der Waals contacts
with the other monomer. This CENP-B dimer configuration
may be suitable for capturing two distant CENP-B boxes
during centromeric heterochromatin formation.
Length = 101
Score = 26.7 bits (58), Expect = 8.3
Identities = 9/35 (25%), Positives = 25/35 (71%)
Query: 226 EKEREKELEEDEEEEKEKDKEENEDDKTPKIEDYG 260
+ + ++E ++D+E+E++ D++++EDD + +G
Sbjct: 13 DSDSDEEEDDDDEDEEDDDEDDDEDDDEVPVPSFG 47
>gnl|CDD|226434 COG3920, COG3920, Signal transduction histidine kinase [Signal
transduction mechanisms].
Length = 221
Score = 27.6 bits (62), Expect = 8.6
Identities = 15/90 (16%), Positives = 31/90 (34%), Gaps = 20/90 (22%)
Query: 12 DVSMAQGDVETFAFQAEIAQLMSLIINTFYSNKEIFLRELISNSSDALDKIRYESLTDPS 71
D+ + + A + LI++ EL++N+ +++ S
Sbjct: 102 DIRLILDSGPNVFLDPDTAVPLGLIVH-----------ELVTNA------LKHAF---LS 141
Query: 72 RLESKKELEIKIIPDKESRTLTIIDSGIGM 101
R + + + D LT+ D G G
Sbjct: 142 RPGGEIRITLSREGDGGRFLLTVWDEGGGP 171
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 27.7 bits (62), Expect = 8.7
Identities = 12/57 (21%), Positives = 35/57 (61%), Gaps = 1/57 (1%)
Query: 203 EKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPKIEDY 259
++I+++ K++ + + K K+ +K+ ++D++++K+ DK E +D+K + +
Sbjct: 68 AEEIEKVKKEYEEKQKWKWKKKKSKK-KKDKDKDKKDDKKDDKSEKKDEKEAEDKLE 123
>gnl|CDD|215532 PLN02982, PLN02982, galactinol-raffinose
galactosyltransferase/ghydrolase, hydrolyzing O-glycosyl
compounds.
Length = 865
Score = 28.2 bits (63), Expect = 9.0
Identities = 27/96 (28%), Positives = 46/96 (47%), Gaps = 9/96 (9%)
Query: 170 GGSFTIKPDHGEQLGRGTKMVLY--IKEDQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEK 227
GGS + PD + KM++Y I+ + AE +K I+ V S+F K+ K
Sbjct: 306 GGSM-LGPDPPHFDPKKPKMLIYKAIEREHAEKARKKAIESGVTDLSEF---DAKI---K 358
Query: 228 EREKELEEDEEEEKEKDKEENEDDKTPKIEDYGWTA 263
+ +KEL+ + E++ E+E + K+ G A
Sbjct: 359 QLKKELDAMFDGEEKSVSSESESSGSCKVSGSGMKA 394
>gnl|CDD|187861 cd09730, Cas8a1_I-A, CRISPR/Cas system-associated protein Cas8a1.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Large proteins, some contain Zn-finger domain; signature
gene for I-A subtype; also known as TM1802 family.
Length = 579
Score = 28.1 bits (63), Expect = 9.0
Identities = 12/49 (24%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 203 EKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEE--EKEKDKEENE 249
KKIK+ +K + ++L K + LE++ E+ + +D + E
Sbjct: 97 NKKIKKWFEKSYLLLESKKEILKLKNIKDVLEKNIEKILKDIQDLKPGE 145
>gnl|CDD|219900 pfam08553, VID27, VID27 cytoplasmic protein. This is a family of
fungal and plant proteins and contains many hypothetical
proteins. VID27 is a cytoplasmic protein that plays a
potential role in vacuolar protein degradation.
Length = 794
Score = 28.2 bits (63), Expect = 9.1
Identities = 14/53 (26%), Positives = 31/53 (58%)
Query: 199 EYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDD 251
E L ++K + + +I L ++ E +++EEE++E+++EE+ED+
Sbjct: 354 ETLNKQKWTKAKETEQDYILDAFSALEIEDANTERDDEEEEDEEEEEEEDEDE 406
>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed.
Length = 106
Score = 26.5 bits (59), Expect = 9.4
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 226 EKEREKELEEDEEEEKEKDKEE 247
E++ EE+EEEE++++ EE
Sbjct: 74 AAAAEEKKEEEEEEEEKEESEE 95
>gnl|CDD|237192 PRK12758, PRK12758, DNA topoisomerase IV subunit A; Provisional.
Length = 869
Score = 28.0 bits (63), Expect = 9.9
Identities = 18/65 (27%), Positives = 28/65 (43%)
Query: 196 DQAEYLEEKKIKEIVKKHSQFIGYPIKLLVEKEREKELEEDEEEEKEKDKEENEDDKTPK 255
D E++ K IK + + + I L E+ EE EE +E D E+ + +
Sbjct: 800 DLEEFIAVKGIKAKGNRLTTYKVKTINELEPLPYEEPEEETAEEPEEVDPEDVKSEDDID 859
Query: 256 IEDYG 260
ED G
Sbjct: 860 DEDTG 864
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
0.312 0.131 0.354
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,247,252
Number of extensions: 2062982
Number of successful extensions: 5523
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4500
Number of HSP's successfully gapped: 419
Length of query: 388
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 289
Effective length of database: 6,546,556
Effective search space: 1891954684
Effective search space used: 1891954684
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 (21.8 bits)
S2: 60 (27.0 bits)