RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4649
(755 letters)
>gnl|CDD|99967 cd03793, GT1_Glycogen_synthase_GSY2_like, Glycogen synthase, which
is most closely related to the GT1 family of
glycosyltransferases, catalyzes the transfer of a
glucose molecule from UDP-glucose to a terminal branch
of a glycogen molecule, a rate-limit step of glycogen
biosynthesis. GSY2, the member of this family in S.
cerevisiae, has been shown to possess glycogen synthase
activity.
Length = 590
Score = 1113 bits (2881), Expect = 0.0
Identities = 421/594 (70%), Positives = 488/594 (82%), Gaps = 7/594 (1%)
Query: 14 NRWVFESAWEVANKVGGIYTVIRSKAFVSSEELGNQYVLLGPYKEQSARTEVEEVEFMNG 73
NR +FE AWEVANKVGGIYTVI+SKA V+ EE G++Y L+GPY E ARTEVE +E N
Sbjct: 1 NRLLFEVAWEVANKVGGIYTVIKSKAPVTVEEWGDRYCLIGPYNEAKARTEVEILEPPNP 60
Query: 74 SPLQIAVDKMREHGFKLHVGNWLVDGNPQIILFDIGSAAWKMDEYKQELWSTCSLGVPHL 133
L+ A+D+MR G K+H G WL++G P+++LFDIGSAAWK+DE+K ELW C +G P
Sbjct: 61 -ALRQALDRMRSRGIKVHFGRWLIEGYPKVVLFDIGSAAWKLDEWKGELWELCGIGSPEG 119
Query: 134 DIEANDAIILGHMVATFIAEFEKVAHNEFGPPKIITHFHEWQAGIGLIALRTRKVPVATV 193
D E NDAII G +VA F+ EF A P ++ HFHEWQAG+GL LR RKV V+T+
Sbjct: 120 DRETNDAIIFGFLVAWFLGEF---AEQFDDEPAVVAHFHEWQAGVGLPLLRKRKVDVSTI 176
Query: 194 FTTHATLLGRYLCAGNTDFYNNLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFTTVSEI 253
FTTHATLLGRYLCAGN DFYNNL FDVD EAG+R IYHRYC+ERAA+H AHVFTTVSEI
Sbjct: 177 FTTHATLLGRYLCAGNVDFYNNLDYFDVDKEAGKRGIYHRYCIERAAAHCAHVFTTVSEI 236
Query: 254 TGYEAEHLLKRKPEVITPNGLNVVKFSAIHEFQNLHARAKEKINEFVRGHFYGHYDFNLD 313
T YEAEHLLKRKP+V+ PNGLNV KFSA+HEFQNLHA++KEKINEFVRGHFYGHYDF+LD
Sbjct: 237 TAYEAEHLLKRKPDVVLPNGLNVKKFSALHEFQNLHAQSKEKINEFVRGHFYGHYDFDLD 296
Query: 314 KTLYFFTAGRYEFTNKGADVFIESLARLNHYLKAANSDVTVVAFLIFPTKTNNFNVESLR 373
KTLYFFTAGRYEF+NKGAD+F+E+LARLN+ LK SD TVVAF I P KTNNFNVESL+
Sbjct: 297 KTLYFFTAGRYEFSNKGADMFLEALARLNYLLKVEGSDTTVVAFFIMPAKTNNFNVESLK 356
Query: 374 GHAVTKSLRDTINEIQGKMSNMSKRIYETCLMGRMPTEDEFFTKEDKTRIKRCLYALQRY 433
G AV K LRDT+N ++ K + KR++E L G++P +E KEDK +KR ++ALQR+
Sbjct: 357 GQAVRKQLRDTVNSVKEK---IGKRLFEAALKGKLPDLEELLDKEDKVMLKRRIFALQRH 413
Query: 434 SLPPVTTHNVIDDWNDPVLCAFRRCHLFNSVHDRVKVIFHPEFLSSTNPLFGLDYEEFVR 493
SLPPV THN++DD NDP+L RR LFNS DRVKV+FHPEFLSSTNPL GLDYEEFVR
Sbjct: 414 SLPPVVTHNMVDDANDPILNHIRRIQLFNSPEDRVKVVFHPEFLSSTNPLLGLDYEEFVR 473
Query: 494 GCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIYIVDRRNI 553
GCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHI DP SYGIYIVDRR
Sbjct: 474 GCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIEDPESYGIYIVDRRFK 533
Query: 554 ALEESIRQLAQYMYDFTTLNRRQRIIQRNRTERLSDLLDWRNLGVYYKQARKLA 607
+ +ES++QL QYMY+F L+RRQRIIQRNRTERLSDLLDWRNLG YY++AR+LA
Sbjct: 534 SPDESVQQLTQYMYEFCQLSRRQRIIQRNRTERLSDLLDWRNLGRYYRKARQLA 587
>gnl|CDD|203307 pfam05693, Glycogen_syn, Glycogen synthase. This family consists
of the eukaryotic glycogen synthase proteins GYS1, GYS2
and GYS3. Glycogen synthase (GS) is the enzyme
responsible for the synthesis of -1,4-linked glucose
chains in glycogen. It is the rate limiting enzyme in
the synthesis of the polysaccharide, and its activity is
highly regulated through phosphorylation at multiple
sites and also by allosteric effectors, mainly glucose
6-phosphate (G6P).
Length = 633
Score = 1107 bits (2864), Expect = 0.0
Identities = 449/703 (63%), Positives = 516/703 (73%), Gaps = 70/703 (9%)
Query: 19 ESAWEVANKVGGIYTVIRSKAFVSSEELGNQYVLLGPYKEQSARTEVEEVEFMNGSPLQI 78
E AWEVANKVGGIYTV+RSKA V+++E G+QY LLGPY E +ARTEVEE+E N S L+
Sbjct: 1 EVAWEVANKVGGIYTVLRSKAPVTTDEYGDQYCLLGPYNEHTARTEVEELEPENPS-LKA 59
Query: 79 AVDKMREHGFKLHVGNWLVDGNPQIILFDIGSAAWKMDEYKQELWSTCSLGVPHLDIEAN 138
+D MR GFK+H G WL++G P++ILFDIGSAAWK++E+K ELW C +G+PH DIE N
Sbjct: 60 TLDSMRSRGFKVHYGRWLIEGAPRVILFDIGSAAWKLNEWKHELWEKCGIGIPHHDIETN 119
Query: 139 DAIILGHMVATFIAEFEKVAHNEFGPPKIITHFHEWQAGIGLIALRTRKVPVATVFTTHA 198
DAII G MVA F+ EF P +I HFHEWQAG+GLI R RK+ VATVFTTHA
Sbjct: 120 DAIIFGFMVAWFLGEFRNSVE---SSPAVIAHFHEWQAGVGLILCRKRKLDVATVFTTHA 176
Query: 199 TLLGRYLCAGNTDFYNNLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFTTVSEITGYEA 258
TLLGRYLCAG DFYNNL FDVD EAG+RQIYHRYC+ERAA+H AHVFTTVSEIT EA
Sbjct: 177 TLLGRYLCAGGVDFYNNLDKFDVDAEAGKRQIYHRYCIERAAAHTAHVFTTVSEITALEA 236
Query: 259 EHLLKRKPEVITPNGLNVVKFSAIHEFQNLHARAKEKINEFVRGHFYGHYDFNLDKTLYF 318
EHLLKRKP++ITPNGLNV KFSA+HEFQNLHA+ KEKIN+FVRGHFYGH DF+LDKTLYF
Sbjct: 237 EHLLKRKPDIITPNGLNVKKFSAVHEFQNLHAQNKEKINDFVRGHFYGHLDFDLDKTLYF 296
Query: 319 FTAGRYEFTNKGADVFIESLARLNHYLKAANSDVTVVAFLIFPTKTNNFNVESLRGHAVT 378
F AGRYEF+NKGAD+FIESLARLNH LK + S VTVVAFLI P KTN+FNVESL+G AV
Sbjct: 297 FIAGRYEFSNKGADMFIESLARLNHRLKTSGSKVTVVAFLIMPAKTNSFNVESLKGQAVI 356
Query: 379 KSLRDTINEIQGKMSNMSKRIYETCLMGRMPTEDEFFTKEDKTRIKRCLYALQRYSLPPV 438
K LRDT+NEI+ + KRI+E+CL G +P DE D +KRC++ALQR SLPPV
Sbjct: 357 KQLRDTVNEIK---EKVGKRIFESCLRGHLPEMDELLDSADLVLLKRCIFALQRDSLPPV 413
Query: 439 TTHNVIDDWNDPVLCAFRRCHLFNSVHDRVKVIFHPEFLSSTNPLFGLDYEEFVRGCHLG 498
THN+IDD NDP+L RR LFNS DRVKVIFHPEFLSST+PL GLDYEEFVRGCHLG
Sbjct: 414 CTHNMIDDANDPILNQIRRVGLFNSPSDRVKVIFHPEFLSSTSPLLGLDYEEFVRGCHLG 473
Query: 499 VFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIYIVDRRNIALEES 558
VFPSYYEPWGYTPAECTVMGIPS+TTNLSGFGCFMEEHI DP YGIYIVDRR + +ES
Sbjct: 474 VFPSYYEPWGYTPAECTVMGIPSVTTNLSGFGCFMEEHIEDPKDYGIYIVDRRFKSPDES 533
Query: 559 IRQLAQYMYDFTTLNRRQRIIQRNRTERLSDLLDWRNLGVYYKQARKLAQYMYDFTTLNR 618
++QLAQ+MY+F +RRQRIIQRNRTERLSDLLDW+ LG YY++AR+L
Sbjct: 534 VQQLAQFMYEFCQQSRRQRIIQRNRTERLSDLLDWKRLGRYYRKARQL------------ 581
Query: 619 RQRIIQRNRTERLSDLLDWRNLGVYYKQARNKALKAVFPDLEARNKALKAVFPDLEVEDD 678
AL+ +PD EVE+
Sbjct: 582 --------------------------------ALRRAYPDQFK-----------QEVEET 598
Query: 679 DTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDEDSV 721
+D+ F PRP S PPSPS S A PS +SD EDS
Sbjct: 599 ISDNE----FKIPRPASVPPSPSPSDA----PSPHSSDAEDSE 633
>gnl|CDD|99974 cd03801, GT1_YqgM_like, This family is most closely related to the
GT1 family of glycosyltransferases and named after YqgM
in Bacillus licheniformis about which little is known.
Glycosyltransferases catalyze the transfer of sugar
moieties from activated donor molecules to specific
acceptor molecules, forming glycosidic bonds. The
acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found
mainly in certain bacteria and archaea.
Length = 374
Score = 54.7 bits (132), Expect = 9e-08
Identities = 44/214 (20%), Positives = 64/214 (29%), Gaps = 56/214 (26%)
Query: 149 TFIAEFEKVAHNEFGPPKIITHFHEWQAG-IGLIALRTRKVPVATVFTTHATLLGRYLCA 207
+ ++ H H+W A +A R +P+ V T H GR
Sbjct: 70 LLLLALRLRRLLRRERFDVV-HAHDWLALLAAALAARLLGIPL--VLTVHGLEFGRP--- 123
Query: 208 GNTDFYNNLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFTTVSEITGYEAEHLLKR--- 264
+ +ER A A VSE E L +
Sbjct: 124 ---------------GNELGLLLKLARALERRALRRADRIIAVSE---ATREELRELGGV 165
Query: 265 ---KPEVITPNGLNVVKFSAIHEFQNLHARAKEKINEFVRGHFYGHYDFNLDKTLYFFTA 321
K VI PNG++ +F AR + I E
Sbjct: 166 PPEKITVI-PNGVDTERFRPAPR----AARRRLGIPE---------------DEPVILFV 205
Query: 322 GRYEFTNKGADVFIESLARLNHYLKAANSDVTVV 355
GR KG D+ +E+LA+ L+ DV +V
Sbjct: 206 GRLVP-RKGVDLLLEALAK----LRKEYPDVRLV 234
Score = 43.1 bits (102), Expect = 4e-04
Identities = 26/119 (21%), Positives = 42/119 (35%), Gaps = 17/119 (14%)
Query: 487 DYEEFVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIY 546
D + V PS YE +G E G+P + +++ G + E + D
Sbjct: 268 DLPALYAAADVFVLPSLYEGFGLVLLEAMAAGLPVVASDVGG----IPEVVEDGE--TGL 321
Query: 547 IVDRRNI-ALEESIRQLAQYMYDFTTLNRRQRIIQRNRTERLSDLLDW----RNLGVYY 600
+V + AL E+I +L R+R+ + R R VYY
Sbjct: 322 LVPPGDPEALAEAILRLLDD------PELRRRLGEAARERVAERFSWDRVAARTEEVYY 374
>gnl|CDD|99959 cd01635, Glycosyltransferase_GTB_type, Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. The structures of the formed
glycoconjugates are extremely diverse, reflecting a wide
range of biological functions. The members of this
family share a common GTB topology, one of the two
protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility.
Length = 229
Score = 49.2 bits (117), Expect = 2e-06
Identities = 15/82 (18%), Positives = 24/82 (29%), Gaps = 8/82 (9%)
Query: 449 DPVLCAFRRCHLFNSVHDRVKVIFHPEFLSSTNPLFGLDYEEFVRGCHLGVFPSYYEPWG 508
P + DRV + + + + V PS E +G
Sbjct: 144 GPEREYLEELLAALLLLDRVIFLGGLDP--------EELLALLLAAADVFVLPSLREGFG 195
Query: 509 YTPAECTVMGIPSITTNLSGFG 530
E G+P I T++ G
Sbjct: 196 LVVLEAMACGLPVIATDVGGPP 217
Score = 28.7 bits (64), Expect = 8.5
Identities = 17/87 (19%), Positives = 26/87 (29%), Gaps = 5/87 (5%)
Query: 143 LGHMVATFIAEFEKVAH--NEFGPPKIITHFHEWQAGIGLIALRTRKVPVATVFTTHATL 200
GH V + F P + H + L+A R +P+ V T H
Sbjct: 29 RGHEVEVVALLLLLLLRILRGFKPDVVHAHGYYPAPLALLLAARLLGIPL--VLTVHGVN 86
Query: 201 LGRYLCAGNTDFYNNLSTFDVDFEAGR 227
+ ++ D F GR
Sbjct: 87 RSLLEGVPLSLLALSIGLADKVF-VGR 112
>gnl|CDD|215979 pfam00534, Glycos_transf_1, Glycosyl transferases group 1.
Mutations in this domain of human PIGA lead to disease
(Paroxysmal Nocturnal haemoglobinuria). Members of this
family transfer activated sugars to a variety of
substrates, including glycogen, Fructose-6-phosphate and
lipopolysaccharides. Members of this family transfer
UDP, ADP, GDP or CMP linked sugars. The eukaryotic
glycogen synthases may be distant members of this
family.
Length = 158
Score = 43.4 bits (103), Expect = 7e-05
Identities = 27/96 (28%), Positives = 38/96 (39%), Gaps = 13/96 (13%)
Query: 489 EEFVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIYIV 548
E R L V PS YE +G E G+P I T++ G I G +V
Sbjct: 73 IELYRIADLFVLPSRYEGFGLVLLEAMAAGVPVIATDVGGP-----AEIVKDGETG-LLV 126
Query: 549 DRRNI-ALEESIRQLAQYMYDFTTLNRRQRIIQRNR 583
D + AL E+I +L R+R+ + R
Sbjct: 127 DPGDAEALAEAIEKLL------KDEELRERLGENAR 156
>gnl|CDD|99965 cd03791, GT1_Glycogen_synthase_DULL1_like, This family is most
closely related to the GT1 family of
glycosyltransferases. Glycogen synthase catalyzes the
formation and elongation of the alpha-1,4-glucose
backbone using ADP-glucose, the second and key step of
glycogen biosynthesis. This family includes starch
synthases of plants, such as DULL1 in Zea mays and
glycogen synthases of various organisms.
Length = 476
Score = 42.9 bits (102), Expect = 5e-04
Identities = 30/133 (22%), Positives = 43/133 (32%), Gaps = 25/133 (18%)
Query: 162 FGPPKIITHFHEWQAGIGLIALRT-----RKVPVATVFTTHATLLGRYLCAGNTDFYNNL 216
P II H H+W G+ L+ + TVFT H L G
Sbjct: 127 GWKPDII-HCHDWHTGLVPALLKEKYADPFFKNIKTVFTIH--NLAYQ---GVFPLEALE 180
Query: 217 STFDVDFEAGRRQI---YHRYCMERAASHLAHVFTTVS-----EIT----GYEAEHLLKR 264
E Y + +A A TTVS EI G + LL+
Sbjct: 181 DLGLPWEELFHIDGLEFYGQVNFLKAGIVYADAVTTVSPTYAREILTPEFGEGLDGLLRA 240
Query: 265 KPEVIT--PNGLN 275
+ ++ NG++
Sbjct: 241 RAGKLSGILNGID 253
>gnl|CDD|223515 COG0438, RfaG, Glycosyltransferase [Cell envelope biogenesis, outer
membrane].
Length = 381
Score = 41.5 bits (96), Expect = 0.001
Identities = 18/109 (16%), Positives = 36/109 (33%), Gaps = 12/109 (11%)
Query: 487 DYEEFVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIY 546
+ E + + V PS E +G E G P I +++ G +E+
Sbjct: 269 ELAELLASADVFVLPSLSEGFGLVLLEAMAAGTPVIASDVGGIPEVVEDGETG------L 322
Query: 547 IVDRRNIALEESIRQLAQYMYDFTTLNRRQRIIQRNRTERLSDLLDWRN 595
+V ++ +LA + + + ER+ + W
Sbjct: 323 LVPPGDVE------ELADALEQLLEDPELREELGEAARERVEEEFSWER 365
Score = 31.8 bits (71), Expect = 1.2
Identities = 31/191 (16%), Positives = 49/191 (25%), Gaps = 37/191 (19%)
Query: 153 EFEKVAHNEFGPPKIITHFHEWQAGIGLIALRTRKVPVATVFTTHATLLGRYLCAGNTDF 212
+ I H G L L + + + V T H + L
Sbjct: 73 RLLLLLKRLLPYDIIHAHSLLLAPGGLLALLLLKLLGIPLVVTLHGLIPRILLLPRLLLL 132
Query: 213 YNNLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFTTVSEITGYEAEHLLKRKPEVITPN 272
+++A LA VS E L V+ PN
Sbjct: 133 L-------------GLLRLLLKRLKKALRLLADRVIAVSPALKELLEALGVPNKIVVIPN 179
Query: 273 GLNVVKFSAIHEFQNLHARAKEKINEFVRGHFYGHYDFNLDKTLYFFTAGRYEFTNKGAD 332
G++ +F + +F GR + KG D
Sbjct: 180 GID------TEKFAPARIGLLPEGGKF-----------------VVLYVGRLD-PEKGLD 215
Query: 333 VFIESLARLNH 343
+ IE+ A+L
Sbjct: 216 LLIEAAAKLKK 226
>gnl|CDD|233724 TIGR02095, glgA, glycogen/starch synthase, ADP-glucose type. This
family consists of glycogen (or starch) synthases that
use ADP-glucose (EC 2.4.1.21), rather than UDP-glucose
(EC 2.4.1.11) as in animals, as the glucose donor. This
enzyme is found in bacteria and plants. Whether the name
given is glycogen synthase or starch synthase depends on
context, and therefore on substrate [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 473
Score = 41.1 bits (97), Expect = 0.002
Identities = 44/218 (20%), Positives = 70/218 (32%), Gaps = 69/218 (31%)
Query: 164 PPKIITHFHEWQAGI--GLIALRTRKVPVATVFTTH--------------ATLLGRYLCA 207
P ++ H H+W + L+ R P+ TVFT H L
Sbjct: 128 QPDVV-HAHDWHTALVPALLKAVYRPNPIKTVFTIHNLAYQGVFPADDFSELGLPPEYFH 186
Query: 208 GNTDFYNNLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFTTVS-----EIT----GYEA 258
+ F + G I + A TTVS EI GY
Sbjct: 187 MEGLEFYGRVNF---LKGG---IVY-----------ADRVTTVSPTYAREILTPEFGYGL 229
Query: 259 EHLLKRKPEVITP--NGLN------------VVKFSAIHEFQNLHARAKEKINEFVRGHF 304
+ +LK + + NG++ +SA +L +A+ K E ++
Sbjct: 230 DGVLKARSGKLRGILNGIDTEVWNPATDPYLKANYSA----DDLAGKAENK--EALQEEL 283
Query: 305 YGHYDFNLDKTLYFFTAGRYEFT-NKGADVFIESLARL 341
+ D L+ R T KG D+ + +L L
Sbjct: 284 --GLPVDDDVPLFGVI-SR--LTQQKGVDLLLAALPEL 316
>gnl|CDD|234487 TIGR04157, glyco_rSAM_CFB, glycosyltransferase, GG-Bacteroidales
peptide system. Members of this protein family are
predicted glycosyltransferases that occur in conserved
gene neighborhoods in various members of the
Bacteroidales. These neighborhoods feature a radical SAM
enzyme predicted to act in peptide modification (family
TIGR04148), peptides from family TIGR04149 with a
characteristic GG cleavage motif, and several other
proteins.
Length = 406
Score = 40.4 bits (95), Expect = 0.003
Identities = 24/92 (26%), Positives = 43/92 (46%), Gaps = 6/92 (6%)
Query: 497 LGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTS-YGIYIVDRRNIAL 555
+GV PS++E Y E + G+P I T +G + E I D + Y I I + R+ +
Sbjct: 303 VGVLPSFHEQCSYVAIEMMMHGLPLIGTTSTG----LSEMIEDGLNGYKIPIKEYRD-YV 357
Query: 556 EESIRQLAQYMYDFTTLNRRQRIIQRNRTERL 587
E ++L Q + + + + + +N R
Sbjct: 358 ELDKKELVQKLLKLLSSSDEAKQMGKNARRRY 389
>gnl|CDD|99971 cd03798, GT1_wlbH_like, This family is most closely related to the
GT1 family of glycosyltransferases. wlbH in Bordetella
parapertussis has been shown to be required for the
biosynthesis of a trisaccharide that, when attached to
the B. pertussis lipopolysaccharide (LPS) core (band B),
generates band A LPS.
Length = 377
Score = 39.7 bits (93), Expect = 0.005
Identities = 27/111 (24%), Positives = 44/111 (39%), Gaps = 23/111 (20%)
Query: 493 RGCHLGVFPSYYEPWGYTPAECTVM------GIPSITTNLSGFGCFMEEHIADPTSYGIY 546
+ V PS E +G V+ G+P + T++ G + E I D
Sbjct: 277 AAADVFVLPSLREGFG------LVLLEAMACGLPVVATDVGG----IPEIITDG--ENGL 324
Query: 547 IVDRRN-IALEESIRQLAQYMYDFTTLNRRQRIIQR----NRTERLSDLLD 592
+V + AL E+I +L + R+R+ +R N ERL +L
Sbjct: 325 LVPPGDPEALAEAILRLLADPWLRLGRAARRRVAERFSWENVAERLLELYR 375
Score = 38.1 bits (89), Expect = 0.014
Identities = 40/191 (20%), Positives = 59/191 (30%), Gaps = 53/191 (27%)
Query: 156 KVAHNEFGPPKII-THFHEWQAGIGLIALRTRKVPVATVFTTHATLLGRYLCAGNTDFYN 214
K+ + P +I HF + R +P+ V T H +
Sbjct: 85 KLLKLKRFRPDLIHAHFAYPDGFAAALLKRKLGIPL--VVTLHGS--------------- 127
Query: 215 NLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFTTVSEITGYEAEHLLK----RKPEVIT 270
DV+ +R R + R A A VSE A+ L + +
Sbjct: 128 -----DVNLLPRKR--LLRA-LLRRALRRADAVIAVSE---ALADELKALGIDPEKVTVI 176
Query: 271 PNGLNVVKFSAIHEFQNLHARAKEKINEFVRGHFYGHYDFNLDKTLYFFTAGRYEFTNKG 330
PNG++ +FS + K + E GR KG
Sbjct: 177 PNGVDTERFSPA----DRAEARKLGLPE---------------DKKVILFVGRLV-PRKG 216
Query: 331 ADVFIESLARL 341
D IE+LARL
Sbjct: 217 IDYLIEALARL 227
>gnl|CDD|219794 pfam08323, Glyco_transf_5, Starch synthase catalytic domain.
Length = 234
Score = 37.3 bits (87), Expect = 0.020
Identities = 56/265 (21%), Positives = 85/265 (32%), Gaps = 56/265 (21%)
Query: 21 AWEVAN--KVGGIYTVIRS--KAFVSSEELGNQYVLLGPY--KEQSARTEVEEVEFMNGS 74
A E A K GG+ V+ + KA +LG+ ++ P R ++EEV +
Sbjct: 5 ASECAPFAKTGGLADVVGALPKALA---KLGHDVRVIMPRYGFIPEERKQLEEVIELYVL 61
Query: 75 PLQIAVDKMREHGFKLHVGNWLVDGNPQIILFDIGSAAWKMDEYKQELWSTCSLGVPHLD 134
+ V ++ G + + +D NP+ FD Y G + D
Sbjct: 62 FGYVGVARLELDGVDV----YFLD-NPE--YFDRPGI------Y-------GDAGRDYED 101
Query: 135 IEANDAIILGHMVATFIAEFEKVAHNEFGPPKIITHFHEWQAGIGLIALRTRK------V 188
A P II H H+W G+ L+
Sbjct: 102 -NAERFAFFSRAALEL-------LRKLGWKPDII-HCHDWHTGLVPAYLKEAYADDPFFK 152
Query: 189 PVATVFTTHATLLGRYLCAGNTDFYNNLSTFDVDFEAGRRQIYHRYCMERAASHLAHVFT 248
+ TVFT H D + L DF + Y + +A A T
Sbjct: 153 NIKTVFTIHNLAYQGV---FPADLLDLLGLPWEDFSIDGLEFYGQINFLKAGIVYADAVT 209
Query: 249 TVS-----EIT----GYEAEHLLKR 264
TVS EI G + LL++
Sbjct: 210 TVSPTYAEEILTPEFGEGLDGLLRK 234
>gnl|CDD|99980 cd03808, GT1_cap1E_like, This family is most closely related to the
GT1 family of glycosyltransferases. cap1E in
Streptococcus pneumoniae is required for the synthesis
of type 1 capsular polysaccharides.
Length = 359
Score = 35.6 bits (83), Expect = 0.080
Identities = 21/78 (26%), Positives = 32/78 (41%), Gaps = 7/78 (8%)
Query: 487 DYEEFVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIY 546
D E + + V PSY E E MG P I T++ G E + D +
Sbjct: 256 DVPELLAAADVFVLPSYREGLPRVLLEAMAMGRPVIATDVPG----CREAVID--GVNGF 309
Query: 547 IVDRRNI-ALEESIRQLA 563
+V + AL ++I +L
Sbjct: 310 LVPPGDAEALADAIERLI 327
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 34.3 bits (79), Expect = 0.16
Identities = 23/105 (21%), Positives = 34/105 (32%), Gaps = 11/105 (10%)
Query: 647 ARNKALKAVFPDLEARNKALKAVFPDLEVEDDDTDSGYGGRFSYPRPYSEPPSPSSSRAT 706
R + L+A + E +K+ K +E D T+ E
Sbjct: 54 LRKRDLRAELEEAERAHKSKKENKLAIEDADKSTNL------DASNEGDEDDDEEDEIKR 107
Query: 707 TPVPSQRNSDDEDSVDDESERAPVPSQRNSDDEDSVDDESERAEL 751
+ + D D D S+ S + DD D D E E A L
Sbjct: 108 KRIEEDARNSDADDSDSSSD-----SDSSDDDSDDDDSEDETAAL 147
>gnl|CDD|235553 PRK05672, dnaE2, error-prone DNA polymerase; Validated.
Length = 1046
Score = 35.2 bits (82), Expect = 0.17
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 5/26 (19%)
Query: 220 DVDFEAGRRQ-----IYHRYCMERAA 240
DVDFE RR+ +Y RY +RAA
Sbjct: 393 DVDFEHDRREEVIQYVYRRYGRDRAA 418
>gnl|CDD|99981 cd03809, GT1_mtfB_like, This family is most closely related to the
GT1 family of glycosyltransferases. mtfB
(mannosyltransferase B) in E. coli has been shown to
direct the growth of the O9-specific polysaccharide
chain. It transfers two mannoses into the position 3 of
the previously synthesized polysaccharide.
Length = 365
Score = 34.3 bits (79), Expect = 0.20
Identities = 23/79 (29%), Positives = 33/79 (41%), Gaps = 9/79 (11%)
Query: 487 DYEEFVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIY 546
+ RG VFPS YE +G E G P I +N+S E +A +Y
Sbjct: 265 ELAALYRGARAFVFPSLYEGFGLPVLEAMACGTPVIASNIS---SLPE--VAGD--AALY 317
Query: 547 IVDRRNI-ALEESIRQLAQ 564
D + AL +I +L +
Sbjct: 318 -FDPLDPEALAAAIERLLE 335
>gnl|CDD|99991 cd03821, GT1_Bme6_like, This family is most closely related to the
GT1 family of glycosyltransferases. Bme6 in Brucella
melitensis has been shown to be involved in the
biosynthesis of a polysaccharide.
Length = 375
Score = 33.8 bits (78), Expect = 0.32
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 14/97 (14%)
Query: 469 KVIFHPEFLSSTNPLFGLDYEEFVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSG 528
+V F T L+G D + L V PS+ E +G AE G P +TT+
Sbjct: 263 RVTF-------TGMLYGEDKAAALADADLFVLPSHSENFGIVVAEALACGTPVVTTDKVP 315
Query: 529 FGCFMEEHIADPTSYGIYIVDRRNIALEESIRQLAQY 565
+ +E ++VD AL ++R+ +
Sbjct: 316 WQELIEYGCG-------WVVDDDVDALAAALRRALEL 345
Score = 31.5 bits (72), Expect = 1.7
Identities = 39/179 (21%), Positives = 57/179 (31%), Gaps = 41/179 (22%)
Query: 168 ITHFHE-WQ--AGIGLIALRTRKVPVATVFTTHATLLGRYLCAGNTDFYNNLSTFDVDFE 224
I H H W + A R +P V + H L + + +
Sbjct: 90 IVHVHGLWSYPSLAAARAARKYGIPY--VVSPH----------------GMLDPWALPHK 131
Query: 225 AGRRQIYHRYCMERAASHLAHVFTTVSEITGYEAEHLLKRKPEVITPNGLNVVKFSAIHE 284
A ++++ R A V T SE E L + P + PNG++ I
Sbjct: 132 ALKKRLAWFLFERRLLQAAAAVHAT-SEQEAAEIRRLGLKAPIAVIPNGVD------IPP 184
Query: 285 FQNLHARAKEKINEFVRGHFYGHYDFNLDKTLYFFTAGRYEFTNKGADVFIESLARLNH 343
F L +R R F L GR KG D+ IE+ A+L
Sbjct: 185 FAALPSRG-------RRRKFP-----ILPDKRIILFLGRLHPK-KGLDLLIEAFAKLAE 230
>gnl|CDD|223374 COG0297, GlgA, Glycogen synthase [Carbohydrate transport and
metabolism].
Length = 487
Score = 33.4 bits (77), Expect = 0.44
Identities = 15/61 (24%), Positives = 20/61 (32%), Gaps = 9/61 (14%)
Query: 140 AIILGHMVATFIAEFEKVAHNEFGPPKIITHFHEWQAGI--GLIALRTRK-VPVATVFTT 196
A P I+ H H+WQ G+ + R R + TVFT
Sbjct: 111 FAFFSLAAAELAPLGLISWL-----PDIV-HAHDWQTGLLPAYLKQRYRSGYIIPTVFTI 164
Query: 197 H 197
H
Sbjct: 165 H 165
>gnl|CDD|221448 pfam12161, HsdM_N, HsdM N-terminal domain. This domain is found at
the N-terminus of the methylase subunit of Type I DNA
methyltransferases. This domain family is found in
bacteria and archaea, and is typically between 123 and
138 amino acids in length. The family is found in
association with pfam02384. Mutations in this region of
EcoKI methyltransferase abolish the normally strong
preference of this system for methylating hemimethylated
substrate. The structure of this domain has been shown
to be all alpha-helical.
Length = 96
Score = 31.0 bits (71), Expect = 0.56
Identities = 17/47 (36%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 630 RLSDLLDWRNLGVYYKQARN----KALKAVFPDLEARNKALKAVFPD 672
RL D+L W NL A + L FP +E N LK VF
Sbjct: 33 RLDDVLRWSNL---KDLADGDELGENLNDAFPGIEELNPDLKGVFMK 76
>gnl|CDD|218126 pfam04520, Senescence_reg, Senescence regulator. This protein
regulates the expression of proteins associated with
leaf senescence in plants.
Length = 146
Score = 31.2 bits (71), Expect = 0.97
Identities = 16/97 (16%), Positives = 25/97 (25%), Gaps = 18/97 (18%)
Query: 676 EDDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDED---------------- 719
E D R P+ P S R
Sbjct: 7 ESDVWWVASSVPGPLARSSGSSPAFKRGLRGPPTSSARTIPKIPKGGRAGAGGAKAASSA 66
Query: 720 --SVDDESERAPVPSQRNSDDEDSVDDESERAELNLP 754
+V D S+ +R+ +D D D+E + +P
Sbjct: 67 PVNVPDWSKILRGRRRRSIEDSDDDDEEDGDGAMMVP 103
>gnl|CDD|221586 pfam12457, TIP_N, Tuftelin interacting protein N terminal. This
domain family is found in eukaryotes, and is typically
between 99 and 114 amino acids in length. The family is
found in association with pfam08697, pfam01585. There
are two completely conserved residues (G and F) that may
be functionally important. TIP is involved in enamel
assembly by interacting with one of the major proteins
responsible for biomineralisation of enamel - tuftelin.
Length = 106
Score = 30.4 bits (69), Expect = 1.00
Identities = 18/89 (20%), Positives = 38/89 (42%), Gaps = 16/89 (17%)
Query: 661 ARNKALKAVFPDLEVEDDDTDSGYGGRFSYPRP--YSEPPSPSSSRATTPVPSQRNSDDE 718
+ +A+ +F D + +D+ GR + YS+P + S ++ + +
Sbjct: 30 TKEQAIYGIFADDDDDDEGERRRGRGRRRSKKKKDYSKPVAFVSGG------IKQAAKEP 83
Query: 719 DSVDDESERAPVPSQRNSDDEDSVDDESE 747
+ D E E + DD++S +D+ E
Sbjct: 84 EEDDKEDE--------SEDDDESDEDDDE 104
>gnl|CDD|216269 pfam01056, Myc_N, Myc amino-terminal region. The myc family
belongs to the basic helix-loop-helix leucine zipper
class of transcription factors, see pfam00010. Myc forms
a heterodimer with Max, and this complex regulates cell
growth through direct activation of genes involved in
cell replication. Mutations in the C-terminal 20
residues of this domain cause unique changes in the
induction of apoptosis, transformation, and G2 arrest.
Length = 329
Score = 31.8 bits (72), Expect = 1.1
Identities = 16/66 (24%), Positives = 24/66 (36%), Gaps = 18/66 (27%)
Query: 688 FSYPRPYSE------PPSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPSQRNSDDEDS 741
F YP P+P T P S +S DS +E E ++E+
Sbjct: 190 FPYPLNERSKSSKVASPTPRLGLRTPPNSS--SSSGSDSESEEDE----------EEEEE 237
Query: 742 VDDESE 747
++E E
Sbjct: 238 EEEEEE 243
>gnl|CDD|176365 cd01770, p47_UBX, p47-like ubiquitin domain. p47_UBX p47 is an
adaptor molecule of the cytosolic AAA ATPase p97. The
principal role of the p97-p47 complex is to regulate
membrane fusion events. Mono-ubiquitin recognition by
p47 is crucial for p97-p47-mediated Golgi membrane
fusion events. p47 has carboxy-terminal SEP and UBX
domains. The UBX domain has a beta-grasp fold similar
to that of ubiquitin however, UBX lacks the c-terminal
double glycine motif and is thus unlikely to be
conjugated to other proteins.
Length = 79
Score = 29.6 bits (67), Expect = 1.1
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 15/61 (24%)
Query: 621 RIIQR-NRTERLSDLLDWRNLGVYYKQARNKALKAVFPDLEARNKALKAVFPDLEVEDDD 679
R++Q+ N + R+SD+ D + AR P+ AR L FP E+ D+
Sbjct: 16 RLVQKFNSSHRVSDVRD------FIVNAR--------PEFAARPFTLMTAFPVKELSDES 61
Query: 680 T 680
Sbjct: 62 L 62
>gnl|CDD|236090 PRK07764, PRK07764, DNA polymerase III subunits gamma and tau;
Validated.
Length = 824
Score = 32.3 bits (74), Expect = 1.1
Identities = 16/62 (25%), Positives = 21/62 (33%), Gaps = 3/62 (4%)
Query: 671 PDLEVEDDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRN---SDDEDSVDDESER 727
P DD D P P P + ++ PS+ DD S+DDE R
Sbjct: 740 PLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPSEEEEMAEDDAPSMDDEDRR 799
Query: 728 AP 729
Sbjct: 800 DA 801
>gnl|CDD|218538 pfam05285, SDA1, SDA1. This family consists of several SDA1
protein homologues. SDA1 is a Saccharomyces cerevisiae
protein which is involved in the control of the actin
cytoskeleton. The protein is essential for cell
viability and is localised in the nucleus.
Length = 317
Score = 31.2 bits (71), Expect = 2.1
Identities = 20/78 (25%), Positives = 29/78 (37%), Gaps = 20/78 (25%)
Query: 674 EVEDDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPSQ 733
EVE+D+ G V S + + DS D+E +
Sbjct: 105 EVEEDEDSDDEGEWID-------------------VESDKEIESSDSEDEEEKDEAAKKA 145
Query: 734 -RNSDDEDSVDDESERAE 750
+SD+E S +DE E AE
Sbjct: 146 KEDSDEELSEEDEEEAAE 163
>gnl|CDD|235585 PRK05733, PRK05733, single-stranded DNA-binding protein;
Provisional.
Length = 172
Score = 30.3 bits (68), Expect = 2.1
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 3/52 (5%)
Query: 676 EDDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQ---RNSDDEDSVDDE 724
+D G S PR ++ P ++ + + P P Q + + D DS DD+
Sbjct: 118 DDQGGQGGGNYNQSAPRQQAQRPQQAAQQQSRPAPQQPAPQPAADFDSFDDD 169
>gnl|CDD|216510 pfam01450, IlvC, Acetohydroxy acid isomeroreductase, catalytic
domain. Acetohydroxy acid isomeroreductase catalyzes
the conversion of acetohydroxy acids into dihydroxy
valerates. This reaction is the second in the synthetic
pathway of the essential branched side chain amino acids
valine and isoleucine.
Length = 146
Score = 29.9 bits (68), Expect = 2.2
Identities = 15/54 (27%), Positives = 20/54 (37%), Gaps = 2/54 (3%)
Query: 378 TKSLRDTINEIQGKMSNMSKRIYETCLMGRMPTEDEFFTKEDKTRIKRCLYALQ 431
K + D I E G +S M I T G T+ K +K L +Q
Sbjct: 49 LKLIVDLIYE--GGLSGMRDSISTTAEYGAYLWGPRIITEATKILMKEILKDIQ 100
>gnl|CDD|223733 COG0661, AarF, Predicted unusual protein kinase [General function
prediction only].
Length = 517
Score = 31.1 bits (71), Expect = 2.3
Identities = 11/30 (36%), Positives = 15/30 (50%), Gaps = 3/30 (10%)
Query: 83 MREHGF---KLHVGNWLVDGNPQIILFDIG 109
+ GF H GN LV + +I+L D G
Sbjct: 281 LLRDGFFHADPHPGNILVRSDGRIVLLDFG 310
>gnl|CDD|219970 pfam08689, Med5, Mediator complex subunit Med5. The mediator
complex is required for the expression of nearly all RNA
pol II dependent genes in Saccharomyces cerevisiae.
Deletion of the MED5 gene leads to increased
transcription of nuclear genes encoding components of
the oxidative phosphorylation machinery, and decreased
transcription of mitochondrial genes encoding components
of the same machinery. There is no orthologue from
pombe, and this subunit appears to be fungal specific.
Length = 977
Score = 31.3 bits (71), Expect = 2.4
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 688 FSYPRPYSEPPSPSSSRATTPVPSQRNSDDEDSVDDESE---RAPVPSQRNSDDEDSVDD 744
S Y E P+S++ T P + D +DD+ + P + + D+ D
Sbjct: 856 KSVLISYLESGIPASNKETVPPCRELTLRDALKLDDDFDMKFGESDPLRAETAQVDNADV 915
Query: 745 ESERAELNLPR 755
+S E++
Sbjct: 916 KSIIQEMSSKE 926
>gnl|CDD|213844 TIGR03657, IsdB, heme uptake protein IsdB. Isd proteins are
iron-regulated surface proteins found in Bacillus,
Staphylococcus and Listeria species and are responsible
for heme scavenging from hemoproteins. The IsdB protein
is only observed in Staphylococcus and consists of an
N-terminal hydrophobic signal sequence, a pair of tandem
NEAT (NEAr Transporter, pfam05031) domains which confers
the ability to bind heme and a C-terminal sortase
processing signal which targets the protein to the cell
wall. IsdB is believed to make a direct contact with
methemoglobin facilitating transfer of heme to IsdB. The
heme is then transferred to other cell wall-bound NEAT
domain proteins such as IsdA and IsdC.
Length = 644
Score = 31.1 bits (69), Expect = 2.9
Identities = 24/120 (20%), Positives = 47/120 (39%), Gaps = 20/120 (16%)
Query: 645 KQARNKALKAVFPDLEARNKALKAVFPDLEVEDDDTDSGYGGRFSYPRPYSEP------- 697
K A+N +FP +E K L + V+ D D Y R +++
Sbjct: 406 KDAKNNTRTIIFPYVEG--KTLYDAIVKVHVKTIDYDGQYHVRIVDKEAFTKANADKTNK 463
Query: 698 -----------PSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPSQRNSDDEDSVDDES 746
+P++ T P ++ S +DS D+++++P + N +S D++
Sbjct: 464 KEQQDNSAKKETTPATPSKPTTPPVEKESQKQDSQKDDNKQSPSVEKENDASSESGKDKT 523
>gnl|CDD|99982 cd03811, GT1_WabH_like, This family is most closely related to the
GT1 family of glycosyltransferases. WabH in Klebsiella
pneumoniae has been shown to transfer a GlcNAc residue
from UDP-GlcNAc onto the acceptor GalUA residue in the
cellular outer core.
Length = 353
Score = 30.8 bits (70), Expect = 3.0
Identities = 20/96 (20%), Positives = 32/96 (33%), Gaps = 6/96 (6%)
Query: 491 FVRGCHLGVFPSYYEPWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIYIVDR 550
+++ L V S YE + E +G P + T+ G E I + G +V
Sbjct: 260 YLKAADLFVLSSRYEGFPNVLLEAMALGTPVVATDCPG----PRE-ILEDGENG-LLVPV 313
Query: 551 RNIALEESIRQLAQYMYDFTTLNRRQRIIQRNRTER 586
+ A + + L R R R R
Sbjct: 314 GDEAALAAAALALLDLLLDPELRERLAAAARERVAR 349
>gnl|CDD|153155 cd04883, ACT_AcuB, C-terminal ACT domain of the Bacillus subtilis
acetoin utilization protein, AcuB. This CD includes
the C-terminal ACT domain of the Bacillus subtilis
acetoin utilization protein, AcuB. AcuB is putatively
involved in the anaerobic catabolism of acetoin, and
related proteins. Studies report the induction of AcuB
by nitrate respiration and also by fermentation. Since
acetoin can be secreted and later serve as a source of
carbon, it has been proposed that, during anaerobic
growth when other carbon sources are exhausted, the
induction of the AcuB protein results in acetoin
catabolism. AcuB-like proteins have two N-terminal
tandem CBS domains and a single C-terminal ACT domain.
Members of this CD belong to the superfamily of ACT
regulatory domains.
Length = 72
Score = 28.0 bits (63), Expect = 3.0
Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 51 VLLGPYKEQSARTEVEEVEFMNGSPLQIAVDKMREHGFKL 90
VL+ P KE+ + V V+ MN P+ ++ +R G+++
Sbjct: 32 VLVYPSKEEDNKILVFRVQTMNPRPI---IEDLRRAGYEV 68
>gnl|CDD|152960 pfam12526, DUF3729, Protein of unknown function (DUF3729). This
family of proteins is found in viruses. Proteins in this
family are typically between 145 and 1707 amino acids in
length. The family is found in association with
pfam01443, pfam01661, pfam05417, pfam01660, pfam00978.
There is a single completely conserved residue L that
may be functionally important.
Length = 115
Score = 29.3 bits (66), Expect = 3.1
Identities = 11/42 (26%), Positives = 15/42 (35%)
Query: 691 PRPYSEPPSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPS 732
P + P P S+ P PS+ + D A PS
Sbjct: 47 RPPVVDTPPPVSAVWVLPPPSEPAAPPPDPEPPVPGPAGPPS 88
>gnl|CDD|216257 pfam01034, Syndecan, Syndecan domain. Syndecans are transmembrane
heparin sulfate proteoglycans which are implicated in
the binding of extracellular matrix components and
growth factors.
Length = 207
Score = 29.7 bits (67), Expect = 3.9
Identities = 16/76 (21%), Positives = 26/76 (34%), Gaps = 17/76 (22%)
Query: 670 FPDLEVEDDDTDSGYGGRFS-------------YPRPYSEPPSPSSSRATTPVPSQRNSD 716
F D E++D+ + SG G S P+ + SPS+ T ++ +
Sbjct: 44 FIDDEMDDEYSGSGSGATPSDDEDSEPVTTSATPPKLTTTSSSPSNDTTTASTSTKTSPT 103
Query: 717 DEDSVDDESERAPVPS 732
V PS
Sbjct: 104 ----VSTTVTTTTSPS 115
>gnl|CDD|219415 pfam07454, SpoIIP, Stage II sporulation protein P (SpoIIP). This
family contains the bacterial stage II sporulation
protein P (SpoIIP) (approximately 350 residues long). It
has been shown that a block in polar cytokinesis in
Bacillus subtilis is mediated partly by transcription of
spoIID, spoIIM and spoIIP. This inhibition of polar
division is involved in the locking in of asymmetry
after the formation of a polar septum during
sporulation. Engulfment in Bacillus subtilis is mediated
by two complementary systems: the first includes the
proteins SpoIID, SpoIIM and SpoIIP (DMP) which carry out
the engulfment, and the second includes the
SpoIIQ-SpoIIIAGH (Q-AH) zipper, that recruits other
proteins to the septum in a second-phase of the
engulfment. The course of events follows as the
incorporation firstly of SpoIIB into the septum during
division to serve directly or indirectly as a landmark
for localising SpoIIM and then SpoIIP and SpoIID to the
septum. SpoIIP and SpoIID interact together to form part
of the DMP complex. SpoIIP itself has been identified as
an autolysin with peptidoglycan hydrolase activity.
Length = 258
Score = 30.0 bits (68), Expect = 4.1
Identities = 12/38 (31%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 279 FSAIHEF-QNLHARAKEKINEFVRGHFYGHYDFNLDKT 315
+ EF + L A+A EK RG F +N D +
Sbjct: 190 YEKNLEFAKKLKAKADEKYPGLSRGIFVKDGRYNQDLS 227
>gnl|CDD|219404 pfam07415, Herpes_LMP2, Gammaherpesvirus latent membrane protein
(LMP2) protein. This family consists of several
Gammaherpesvirus latent membrane protein (LMP2)
proteins. Epstein-Barr virus is a human Gammaherpesvirus
that infects and establishes latency in B lymphocytes in
vivo. The latent membrane protein 2 (LMP2) gene is
expressed in latently infected B cells and encodes two
protein isoforms, LMP2A and LMP2B, that are identical
except for an additional N-terminal 119 aa cytoplasmic
domain which is present in the LMP2A isoform. LMP2A is
thought to play a key role in either the establishment
or the maintenance of latency and/or the reactivation of
productive infection from the latent state. The
significance of LMP2B and its role in pathogenesis
remain unclear.
Length = 489
Score = 30.2 bits (68), Expect = 4.1
Identities = 9/42 (21%), Positives = 12/42 (28%), Gaps = 5/42 (11%)
Query: 677 DDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDE 718
D D G YP + R PVP ++
Sbjct: 19 GPDGDEG-DSNPYYPSSFGSSW----DRPGPPVPEDYDAPSH 55
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 30.2 bits (69), Expect = 4.2
Identities = 17/85 (20%), Positives = 33/85 (38%), Gaps = 9/85 (10%)
Query: 556 EESIRQLAQYMYDFTTLNRRQRIIQRNRTERLSDLLDWRNLGVYYKQARKL-AQY---MY 611
+ +Y+ + L R ++ + R + L LLD G + +L +Y MY
Sbjct: 263 AAGFQAYPEYLAE--ALQRIRKRLGGERYQELLALLD---AGGHLAWIEELLLEYYDPMY 317
Query: 612 DFTTLNRRQRIIQRNRTERLSDLLD 636
+ + RI R +++ L
Sbjct: 318 RYQLEKKADRIDFRGDLAEVAEWLR 342
>gnl|CDD|237610 PRK14099, PRK14099, glycogen synthase; Provisional.
Length = 485
Score = 30.5 bits (69), Expect = 4.4
Identities = 15/32 (46%), Positives = 17/32 (53%), Gaps = 3/32 (9%)
Query: 168 ITHFHEWQAGIGLIALR--TRKVPVATVFTTH 197
I H H+WQAG+ L R P TVFT H
Sbjct: 136 IVHAHDWQAGLAPAYLHYSGRPAP-GTVFTIH 166
>gnl|CDD|227061 COG4717, COG4717, Uncharacterized conserved protein [Function
unknown].
Length = 984
Score = 30.6 bits (69), Expect = 4.5
Identities = 34/216 (15%), Positives = 67/216 (31%), Gaps = 20/216 (9%)
Query: 550 RRNIALEESIRQLAQYMYDFTTLNRRQRIIQRNRTERLSDLLDWRNLGVYYKQARKLAQY 609
R L +R ++ +Q + +L L R + + +
Sbjct: 219 ARLAELRSELRADRDHIRALRDAVELWPRLQEWK--QLEQELTRRREELATFPRDGVLRL 276
Query: 610 MYDFTTLNRRQRIIQRNRTERLSDLLDWRNLGVYYKQARNKALKAVFPDLEARNKA---L 666
L + + I RL++L D + + K+A +AL + L + L
Sbjct: 277 EKREAHLQKTEAEID-ALLVRLAELKDLASQLIPAKEAVLQALVRLHQQLSEIKASAFEL 335
Query: 667 KAVFPDLEVEDDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDEDS------ 720
+E + D + G F R + S SQR ++
Sbjct: 336 TETLAGIEADLRDKEEAAGNGFEAERVHDL---RSLECMLRYQSSQRELKQTEAAYCKRL 392
Query: 721 -----VDDESERAPVPSQRNSDDEDSVDDESERAEL 751
+DE+E + ++E DE+ ++
Sbjct: 393 DEKRLFEDEAEEEARQRLADDEEEVRAGDEAREEKI 428
>gnl|CDD|220135 pfam09184, PPP4R2, PPP4R2. PPP4R2 (protein phosphatase 4 core
regulatory subunit R2) is the regulatory subunit of the
histone H2A phosphatase complex. It has been shown to
confer resistance to the anticancer drug cisplatin in
yeast, and may confer resistance in higher eukaryotes.
Length = 285
Score = 29.8 bits (67), Expect = 4.6
Identities = 9/56 (16%), Positives = 22/56 (39%)
Query: 695 SEPPSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPSQRNSDDEDSVDDESERAE 750
S+ + + SDDE+ D + + + ++E+ ++E E +
Sbjct: 227 SDAAASQDDGPKGSDVKNKKSDDEEDDDQDGDYVEEKELKEDEEEEETEEEEEEED 282
>gnl|CDD|223039 PHA03307, PHA03307, transcriptional regulator ICP4; Provisional.
Length = 1352
Score = 30.5 bits (69), Expect = 4.7
Identities = 17/63 (26%), Positives = 22/63 (34%)
Query: 679 DTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPSQRNSDD 738
+ G S PR S PSPSS + S R S S + S + S +S
Sbjct: 279 SSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTSSSSESSRG 338
Query: 739 EDS 741
Sbjct: 339 AAV 341
Score = 30.5 bits (69), Expect = 4.9
Identities = 15/83 (18%), Positives = 21/83 (25%), Gaps = 14/83 (16%)
Query: 678 DDTDSGYGGRFSYPRPY------------SEPPSPSSSRATT--PVPSQRNSDDEDSVDD 723
+ + G+G P P + + SSR S R S
Sbjct: 243 ESSGCGWGPENECPLPRPAPITLPTRIWEASGWNGPSSRPGPASSSSSPRERSPSPSPSS 302
Query: 724 ESERAPVPSQRNSDDEDSVDDES 746
S R S S + S
Sbjct: 303 PGSGPAPSSPRASSSSSSSRESS 325
>gnl|CDD|227445 COG5114, COG5114, Histone acetyltransferase complex SAGA/ADA,
subunit ADA2 [Chromatin structure and dynamics].
Length = 432
Score = 30.0 bits (67), Expect = 5.7
Identities = 24/102 (23%), Positives = 38/102 (37%), Gaps = 20/102 (19%)
Query: 562 LAQYMYDFTTLNRRQRIIQRNRTERLSDLLDWRNLGV-----------YYKQARKLAQYM 610
L Y T RR+ I +L+D+RNL + A+Y+
Sbjct: 205 LDIYNSRLTFRARRKHAIFGK------NLMDYRNLQAKDKKRSKEECGLVNSIKWFARYL 258
Query: 611 Y--DFTTLNRRQRIIQRNRTERLSDLLDWRNLGVYYKQARNK 650
DF R + +R+ +L +WRN G+ +A K
Sbjct: 259 TKSDFNVFFR-DILEGVYIEKRIHELQEWRNNGLTTLEAGLK 299
>gnl|CDD|234428 TIGR03979, His_Ser_Rich, His-Xaa-Ser repeat protein HxsA. Members
of this protein share two defining regions. One is a
histidine/serine-rich cluster, typically
H-R-S-H-S-S-H-R-S-H-S-S-H. Members are found always in
the context of a pair of radical SAM proteins, HxsB and
HxsC, and a fourth protein HxsD. The system is predicted
to perform peptide modifications, likely in the
His-Xaa-Ser region, to produce some uncharacterized
natural product.
Length = 186
Score = 29.1 bits (65), Expect = 5.8
Identities = 19/63 (30%), Positives = 25/63 (39%), Gaps = 13/63 (20%)
Query: 682 SGYGGRFSYPRP----YSEP-PSPSSSRATTPVPSQRNSDDEDSVDDESERAPVPSQRNS 736
SG GG +S P YS P PSPS S + S+ + P S N+
Sbjct: 70 SGAGGSYSVPSGDTSTYSYPVPSPSYSPSPGSSIQ--------SLPSTTGVRPQSSAENA 121
Query: 737 DDE 739
+ E
Sbjct: 122 NSE 124
>gnl|CDD|217392 pfam03153, TFIIA, Transcription factor IIA, alpha/beta subunit.
Transcription initiation factor IIA (TFIIA) is a
heterotrimer, the three subunits being known as alpha,
beta, and gamma, in order of molecular weight. The N and
C-terminal domains of the gamma subunit are represented
in pfam02268 and pfam02751, respectively. This family
represents the precursor that yields both the alpha and
beta subunits. The TFIIA heterotrimer is an essential
general transcription initiation factor for the
expression of genes transcribed by RNA polymerase II.
Together with TFIID, TFIIA binds to the promoter region;
this is the first step in the formation of a
pre-initiation complex (PIC). Binding of the rest of the
transcription machinery follows this step. After
initiation, the PIC does not completely dissociate from
the promoter. Some components, including TFIIA, remain
attached and re-initiate a subsequent round of
transcription.
Length = 332
Score = 29.7 bits (67), Expect = 6.0
Identities = 20/49 (40%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 701 SSSRATTPVPSQRNSDDED--SVDDESERAPVPSQRNSDDEDSVDDESE 747
SS R T +SDDE S DD+ E A SD +DS DD S+
Sbjct: 235 SSKRRTIAQIDGIDSDDEGDGSDDDDDEDAI-----ESDLDDSDDDVSD 278
>gnl|CDD|223052 PHA03346, PHA03346, US22 family homolog; Provisional.
Length = 520
Score = 29.7 bits (67), Expect = 6.3
Identities = 22/88 (25%), Positives = 33/88 (37%), Gaps = 11/88 (12%)
Query: 661 ARNKALKAVFPDLEVEDDDTDSGYGGRFSYPRPYSEPPSPSSSRATTPVPSQRNSDDEDS 720
R + + P E++D G GG P EPP P P P + DDE
Sbjct: 385 LRGEFAERRRPRGPPENEDEADGGGGL----APPPEPPRP-------PPPPFPDDDDEGD 433
Query: 721 VDDESERAPVPSQRNSDDEDSVDDESER 748
+D+ + + + DD + D E
Sbjct: 434 DEDDDDWEDLGFDLDEDDVYDLKDVDEW 461
>gnl|CDD|178163 PLN02548, PLN02548, adenosine kinase.
Length = 332
Score = 29.7 bits (67), Expect = 6.7
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 5/53 (9%)
Query: 498 GVFPSYYE----PWGYTPAECTVMGIPSITTNLSGFGCFMEEHIADPTSYGIY 546
GV YYE P G T A V G S+ NLS C+ EH+ P ++ +
Sbjct: 95 GVNVHYYEDESTPTG-TCAVLVVGGERSLVANLSAANCYKVEHLKKPENWALV 146
>gnl|CDD|216618 pfam01636, APH, Phosphotransferase enzyme family. This family
consists of bacterial antibiotic resistance proteins,
which confer resistance to various aminoglycosides they
include: aminoglycoside 3'-phosphotransferase or
kanamycin kinase / neomycin-kanamycin phosphotransferase
and streptomycin 3''-kinase or streptomycin
3''-phosphotransferase. The aminoglycoside
phosphotransferases inactivate aminoglycoside
antibiotics via phosphorylation. This family also
includes homoserine kinase. This family is related to
fructosamine kinase pfam03881.
Length = 238
Score = 29.1 bits (65), Expect = 7.8
Identities = 17/83 (20%), Positives = 28/83 (33%), Gaps = 24/83 (28%)
Query: 90 LHVGNWLVDGNPQII-LFDIGSAAWKMDEYKQELWSTCSLGVPHLDIEANDAIILGH--- 145
LH GN LVD ++ + D + LG P D+ A +L
Sbjct: 172 LHPGNLLVDPGGRVTGVID---------------FEDAGLGDPAYDL----ASLLRSLGE 212
Query: 146 -MVATFIAEFEKVAHNEFGPPKI 167
+ A +A + P ++
Sbjct: 213 ELGAELLAAYLAAYGAAPDPARL 235
>gnl|CDD|224563 COG1649, COG1649, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 418
Score = 29.3 bits (66), Expect = 8.3
Identities = 15/88 (17%), Positives = 27/88 (30%), Gaps = 15/88 (17%)
Query: 303 HFYGHYDFNLD---KTLYFFTAGRYEFTNKGA---------DVFIESLARLNHYLKAANS 350
+FY F D TLY + G+ +N + A+++ +KA
Sbjct: 208 YFYYPIPFGYDPDTVTLYRYETGKGPPSNPDQWTDWRRDNITALV---AQISQTVKAVKP 264
Query: 351 DVTVVAFLIFPTKTNNFNVESLRGHAVT 378
+V P + F +
Sbjct: 265 NVKFSVSPFNPLGSATFAYDYFLQDWRR 292
>gnl|CDD|217927 pfam04147, Nop14, Nop14-like family. Emg1 and Nop14 are novel
proteins whose interaction is required for the
maturation of the 18S rRNA and for 40S ribosome
production.
Length = 809
Score = 29.6 bits (67), Expect = 9.0
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 715 SDDEDSVDDESERAPVPSQRNSDDEDSVDDESERAE 750
DD+D ++E + + + +DEDS D++ E E
Sbjct: 337 DDDDDLEEEEEDVDLSDEEEDEEDEDSDDEDDEEEE 372
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
0.320 0.136 0.413
Gapped
Lambda K H
0.267 0.0806 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 39,818,282
Number of extensions: 4012696
Number of successful extensions: 4386
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4327
Number of HSP's successfully gapped: 70
Length of query: 755
Length of database: 10,937,602
Length adjustment: 104
Effective length of query: 651
Effective length of database: 6,324,786
Effective search space: 4117435686
Effective search space used: 4117435686
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 63 (27.9 bits)