RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16200
(183 letters)
>gnl|CDD|236967 PRK11749, PRK11749, dihydropyrimidine dehydrogenase subunit A;
Provisional.
Length = 457
Score = 86.4 bits (215), Expect = 3e-20
Identities = 59/179 (32%), Positives = 84/179 (46%), Gaps = 23/179 (12%)
Query: 8 KDGYTAIFIGIG--KPNANVIPIFQGLTEEM-GFYTSKTFLPRVATSSKKGLCGGCKKES 64
+ GY A+FIG G P IP G E + G Y++ FL RV
Sbjct: 223 RAGYDAVFIGTGAGLPRFLGIP---G--ENLGGVYSAVDFLTRVNQ----------AVAD 267
Query: 65 LPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCE 123
+ G V+V+G G+TA D A +A R GA V +V+R+G + A EEV+ A EE E
Sbjct: 268 YDLPVGKRVVVIGGGNTAMDAARTAKRLGAESVTIVYRRGREEMPASEEEVEHAKEEGVE 327
Query: 124 FLPFMSPVQVDVKDNKIAGMQFNRTEQNEKGE----WVEDEEQRIKLKANYIISAFGST 178
F +PV++ + ++ G++F R E E V E L A+ +I A G T
Sbjct: 328 FEWLAAPVEILGDEGRVTGVEFVRMELGEPDASGRRRVPIEGSEFTLPADLVIKAIGQT 386
>gnl|CDD|237198 PRK12771, PRK12771, putative glutamate synthase (NADPH) small
subunit; Provisional.
Length = 564
Score = 74.5 bits (184), Expect = 5e-16
Identities = 36/117 (30%), Positives = 62/117 (52%), Gaps = 7/117 (5%)
Query: 65 LPILKGTVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEF 124
P L V+V+G G+TA D A +A R GA +V +V+R+ ++ A EE++ A E E
Sbjct: 263 PPFLGKRVVVIGGGNTAMDAARTARRLGAEEVTIVYRRTREDMPAHDEEIEEALREGVEI 322
Query: 125 LPFMSPVQVDVKDNKIAGMQFNRTEQNEKGE--W---VEDEEQRIKLKANYIISAFG 176
+PV+++ +N G++ E+ E E V EE+ + +A+ ++ A G
Sbjct: 323 NWLRTPVEIEGDENGATGLRVITVEKMELDEDGRPSPVTGEEETL--EADLVVLAIG 377
>gnl|CDD|183780 PRK12831, PRK12831, putative oxidoreductase; Provisional.
Length = 464
Score = 68.1 bits (167), Expect = 7e-14
Identities = 58/183 (31%), Positives = 88/183 (48%), Gaps = 21/183 (11%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEE--MGFYTSKTFLPRVATSSKKGLCGGCKKE 63
L ++G+ A+FIG G +P F G+ E G +++ FL RV L K E
Sbjct: 224 LEEEGFDAVFIGSGAG----LPKFMGIPGENLNGVFSANEFLTRV------NLMKAYKPE 273
Query: 64 S-LPILKGT-VIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEK 121
PI G V V+G G+ A D A +ALR GA +V +V+R+ + A EEV A EE
Sbjct: 274 YDTPIKVGKKVAVVGGGNVAMDAARTALRLGA-EVHIVYRRSEEELPARVEEVHHAKEEG 332
Query: 122 CEFLPFMSPVQVDVKDN-KIAGMQFNRTEQNEKGEW-----VEDEEQRIKLKANYIISAF 175
F +PV++ +N + GM+ + E E VE E L+ + +I +
Sbjct: 333 VIFDLLTNPVEILGDENGWVKGMKCIKMELGEPDASGRRRPVEIEGSEFVLEVDTVIMSL 392
Query: 176 GST 178
G++
Sbjct: 393 GTS 395
>gnl|CDD|236630 PRK09853, PRK09853, putative selenate reductase subunit YgfK;
Provisional.
Length = 1019
Score = 67.7 bits (166), Expect = 1e-13
Identities = 47/174 (27%), Positives = 77/174 (44%), Gaps = 17/174 (9%)
Query: 5 KLRKDGYTAIFIGIGKPNANVIPIFQGLTEEMGFYTSKTFLPRVATSSKKGLCGGCKKES 64
+L+ +GY + + IG + + G + FL K K +
Sbjct: 618 QLKNEGYDYVVVAIGADKNGGLKLEGG---NQNVIKALPFLEEY----KN------KGTA 664
Query: 65 LPILKGTVIVLGAGDTAFDCATSALRC-GANKVLVVFRKGCTNIRAVPEEVQLAWEEKCE 123
L + K V+V+G G+TA D A +ALR G KV VV+R+ + A EE + A E+ E
Sbjct: 665 LKLGK-HVVVVGGGNTAMDAARAALRVPGVEKVTVVYRRTKQEMPAWREEYEEALEDGVE 723
Query: 124 FLPFMSPVQVDVKDNKIAGMQFNRTEQNEKGEW-VEDEEQRIKLKANYIISAFG 176
F ++P D D + E +E G + + + L+A+ +I+A G
Sbjct: 724 FKELLNPESFD-ADGTLTCRVMKLGEPDESGRRRPVETGETVTLEADTVITAIG 776
>gnl|CDD|237200 PRK12778, PRK12778, putative bifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta;
Provisional.
Length = 752
Score = 67.5 bits (165), Expect = 1e-13
Identities = 45/132 (34%), Positives = 65/132 (49%), Gaps = 14/132 (10%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEE--MGFYTSKTFLPRVATSSKKGLCGGCKKE 63
L ++G+ IFI G +P F + E G +S +L RV L +
Sbjct: 513 LEEEGFKGIFIASGAG----LPNFMNIPGENSNGVMSSNEYLTRV------NLMDAASPD 562
Query: 64 S-LPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEK 121
S PI G V V+G G+TA D A +A R GA +V +V+R+ + A EEV+ A EE
Sbjct: 563 SDTPIKFGKKVAVVGGGNTAMDSARTAKRLGAERVTIVYRRSEEEMPARLEEVKHAKEEG 622
Query: 122 CEFLPFMSPVQV 133
EFL +P++
Sbjct: 623 IEFLTLHNPIEY 634
>gnl|CDD|183738 PRK12775, PRK12775, putative trifunctional 2-polyprenylphenol
hydroxylase/glutamate synthase subunit beta/ferritin
domain-containing protein; Provisional.
Length = 1006
Score = 66.9 bits (163), Expect = 3e-13
Identities = 62/187 (33%), Positives = 90/187 (48%), Gaps = 30/187 (16%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEEMG--FYTSKTFLPRVATSSKKGLCGGCKKE 63
+ G+ A+F+G+G P F G+ E Y++ FL RV L GG K
Sbjct: 513 MNDKGFDAVFLGVGAG----APTFLGIPGEFAGQVYSANEFLTRV------NLMGGDKFP 562
Query: 64 SL--PILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEE 120
L PI G +V+V+GAG+TA DC A R GA V V+R+ A EE++ A EE
Sbjct: 563 FLDTPISLGKSVVVIGAGNTAMDCLRVAKRLGAPTVRCVYRRSEAEAPARIEEIRHAKEE 622
Query: 121 KCEFLPFMSPVQVDV-KDNKIAGMQFNRTEQNEKGEWVEDEEQR---------IKLKANY 170
+F SPV++ V + + GM + E+ E GE DE+ R L+ +
Sbjct: 623 GIDFFFLHSPVEIYVDAEGSVRGM---KVEEMELGE--PDEKGRRKPMPTGEFKDLECDT 677
Query: 171 IISAFGS 177
+I A G+
Sbjct: 678 VIYALGT 684
>gnl|CDD|223567 COG0493, GltD, NADPH-dependent glutamate synthase beta chain and
related oxidoreductases [Amino acid transport and
metabolism / General function prediction only].
Length = 457
Score = 65.8 bits (161), Expect = 5e-13
Identities = 54/185 (29%), Positives = 80/185 (43%), Gaps = 21/185 (11%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEEMGFYTSKTFLPRVATSSKKGLCGGCKKESL 65
L K+ Y A+F+ G + I + G + FL R+ K + G ++
Sbjct: 205 LLKE-YDAVFLATGAGKPRPLDIP--GEDAKGVAFALDFLTRL----NKEVLGDFAEDRT 257
Query: 66 PILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTN------IRAVPEEVQLAW 118
P KG V+V+G GDTA DCA +ALR GA V +R+ + A EV+ A
Sbjct: 258 PPAKGKRVVVIGGGDTAMDCAGTALRLGAKSVTCFYREDRDDETNEWPTWAAQLEVRSAG 317
Query: 119 EEKCEFLPFMSPVQVDVKDN-KIAGMQFNRTEQNE------KGEWVEDEEQRIKLKANYI 171
EE E LPF+ P + ++ G++F R E E + V A+ +
Sbjct: 318 EEGVERLPFVQPKAFIGNEGGRVTGVKFGRVEPGEYVDGWGRRGPVGVIGTEKTDAADTV 377
Query: 172 ISAFG 176
I A G
Sbjct: 378 ILAIG 382
>gnl|CDD|130385 TIGR01318, gltD_gamma_fam, glutamate synthase small subunit family
protein, proteobacterial. This model represents one of
three built for the NADPH-dependent or NADH-dependent
glutamate synthase (EC 1.4.1.13 and 1.4.1.14,
respectively) small subunit and homologs. TIGR01317
describes the small subunit (or equivalent region from
longer forms) in eukaryotes, Gram-positive bacteria, and
some other lineages, both NADH and NADPH-dependent.
TIGR01316 describes a protein of similar length, from
Archaea and a number of bacterial lineages, that forms
glutamate synthase homotetramers without a large
subunit. This model describes both glutatate synthase
small subunit and closely related paralogs of unknown
function from a number of gamma and alpha subdivision
Proteobacteria, including E. coli.
Length = 467
Score = 65.6 bits (160), Expect = 5e-13
Identities = 54/179 (30%), Positives = 81/179 (45%), Gaps = 23/179 (12%)
Query: 11 YTAIFIGIGKPNANVIPIFQGLTEE--MGFYTSKTFLPRVATSSKKGLCGGCKKESLPIL 68
Y A+F+G+G + + GL E G + FL ++ + L G + P++
Sbjct: 227 YDAVFLGVGTYRS----MRGGLPGEDAPGVLQALPFL----IANTRQLMGLPESPEEPLI 278
Query: 69 KGT---VIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEFL 125
V+VLG GDTA DC +A+R GA V +R+ N+ EV A EE EFL
Sbjct: 279 DVEGKRVVVLGGGDTAMDCVRTAIRLGAASVTCAYRRDEANMPGSRREVANAREEGVEFL 338
Query: 126 PFMSPVQVDV-KDNKIAGMQFNRTEQNEKG-------EWVEDEEQRIKLKANYIISAFG 176
+ PV ++ +D ++ G+ RT E V E L A+ +I AFG
Sbjct: 339 FNVQPVYIECDEDGRVTGVGLVRTALGEPDADGRRRPVPVAGSEF--VLPADVVIMAFG 395
>gnl|CDD|183733 PRK12769, PRK12769, putative oxidoreductase Fe-S binding subunit;
Reviewed.
Length = 654
Score = 62.5 bits (152), Expect = 8e-12
Identities = 31/82 (37%), Positives = 47/82 (57%), Gaps = 1/82 (1%)
Query: 72 VIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEFLPFMSPV 131
V+VLG GDTA DC +ALR GA+ V +R+ N+ +EV+ A EE F + PV
Sbjct: 471 VVVLGGGDTAMDCVRTALRHGASNVTCAYRRDEANMPGSKKEVKNAREEGANFEFNVQPV 530
Query: 132 QVDVKDN-KIAGMQFNRTEQNE 152
+++ + + G++F RT E
Sbjct: 531 ALELNEQGHVCGIRFLRTRLGE 552
>gnl|CDD|130383 TIGR01316, gltA, glutamate synthase (NADPH), homotetrameric. This
protein is homologous to the small subunit of NADPH and
NADH forms of glutamate synthase as found in eukaryotes
and some bacteria. This protein is found in numerous
species having no homolog of the glutamate synthase
large subunit. The prototype of the family, from
Pyrococcus sp. KOD1, was shown to be active as a
homotetramer and to require NADPH [Amino acid
biosynthesis, Glutamate family].
Length = 449
Score = 60.7 bits (147), Expect = 3e-11
Identities = 57/186 (30%), Positives = 87/186 (46%), Gaps = 24/186 (12%)
Query: 3 TLKLRKDGYTAIFIGIG--KPNANVIPIFQGLTEEM-GFYTSKTFLPRVATSSKKGLCGG 59
TL+ Y A+FIG G P IP EE+ G Y++ FL R
Sbjct: 211 TLEELFSQYDAVFIGTGAGLPKLMNIP-----GEELCGVYSANDFLTRANLMKAYEF--- 262
Query: 60 CKKESLPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAW 118
P+ G +V+V+G G+TA D A +ALR GA +V ++R+ ++ A EE+ A
Sbjct: 263 -PHADTPVYAGKSVVVIGGGNTAVDSARTALRLGA-EVHCLYRRTREDMTARVEEIAHAE 320
Query: 119 EEKCEFLPFMSPVQVDVKDN-KIAGMQFNRT---EQNEKGEWVE----DEEQRIKLKANY 170
EE +F PV++ + + ++F + EQ + GE D E KL+A+
Sbjct: 321 EEGVKFHFLCQPVEIIGDEEGNVRAVKFRKMDCQEQIDSGERRFLPCGDAE--CKLEADA 378
Query: 171 IISAFG 176
+I A G
Sbjct: 379 VIVAIG 384
>gnl|CDD|132358 TIGR03315, Se_ygfK, putative selenate reductase, YgfK subunit.
Members of this protein family are YgfK, predicted to be
one subunit of a three-subunit, molybdopterin-containing
selenate reductase. This enzyme is found, typically, in
genomic regions associated with xanthine dehydrogenase
homologs predicted to belong to the selenium-dependent
molybdenum hydroxylases (SDMH). Therefore, the selenate
reductase is suggested to play a role in furnishing
selenide for SelD, the selenophosphate synthase.
Length = 1012
Score = 60.6 bits (147), Expect = 3e-11
Identities = 48/174 (27%), Positives = 76/174 (43%), Gaps = 20/174 (11%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEEMGFYTSKTFLPRVATSSKKGLCGGCKKESL 65
L+ GY + + IG + + G + S FL + K+G
Sbjct: 617 LKNQGYKYVILAIGAWKHGPLRLEGGGERVLK---SLEFL----RAFKEG------PTIN 663
Query: 66 PILKGTVIVLGAGDTAFDCATSALRC-GANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEF 124
P+ K V+V+G G+TA D A +ALR G KV VV+R+ + A EE++ A E+ +F
Sbjct: 664 PLGK-HVVVVGGGNTAMDAARAALRVPGVEKVTVVYRRTKRYMPASREELEEALEDGVDF 722
Query: 125 LPFMSPVQVDVKDNKIAGMQFNRTEQNEKGEW--VEDEEQRIKLKANYIISAFG 176
+SP + D + E + G V E + L A+ +I+A G
Sbjct: 723 KELLSPESFE--DGTLTCEVMKLGEPDASGRRRPVGTGET-VDLPADTVIAAVG 773
>gnl|CDD|237213 PRK12810, gltD, glutamate synthase subunit beta; Reviewed.
Length = 471
Score = 60.2 bits (147), Expect = 4e-11
Identities = 50/189 (26%), Positives = 73/189 (38%), Gaps = 32/189 (16%)
Query: 5 KLRKDGYTAIFIGIGKPNANVIPI----FQGLTEEMGFYTSKTFLPRVATSSKKGLCGGC 60
+L + Y A+F+G G + I G+ M F T R G
Sbjct: 224 ELLAE-YDAVFLGTGAYKPRDLGIPGRDLDGVHFAMDFLIQNT---RR--------VLGD 271
Query: 61 KKESLPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVF---------RKGCTNIRAV 110
+ E KG V+V+G GDT DC +A+R GA V R
Sbjct: 272 ETEPFISAKGKHVVVIGGGDTGMDCVGTAIRQGAKSV-TQRDIMPMPPSRRNKNNPWPYW 330
Query: 111 PE--EVQLAWEEKCEFLPFMSPVQVDVKDNKIAGMQFNRTEQNEKG-EWVEDEEQRIKLK 167
P EV A EE E + + + ++ K+ G++ RTE E E VE E +
Sbjct: 331 PMKLEVSNAHEEGVEREFNVQTKEFEGENGKVTGVKVVRTELGEGDFEPVEGSEFVL--P 388
Query: 168 ANYIISAFG 176
A+ ++ A G
Sbjct: 389 ADLVLLAMG 397
>gnl|CDD|183762 PRK12809, PRK12809, putative oxidoreductase Fe-S binding subunit;
Reviewed.
Length = 639
Score = 51.6 bits (123), Expect = 5e-08
Identities = 49/177 (27%), Positives = 79/177 (44%), Gaps = 19/177 (10%)
Query: 11 YTAIFIGIGKPNANVIPIFQGLTEE--MGFYTSKTFLPRVATSSKKGLCGGCKKESLPI- 67
Y A+FIG+G + L E G + FL T+ + L G + E P+
Sbjct: 396 YDAVFIGVGTYGM----MRADLPHEDAPGVIQALPFL----TAHTRQLMGLPESEEYPLT 447
Query: 68 -LKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEFL 125
++G V+VLG GDT DC +++R A V +R+ ++ +EV A EE EF
Sbjct: 448 DVEGKRVVVLGGGDTTMDCLRTSIRLNAASVTCAYRRDEVSMPGSRKEVVNAREEGVEFQ 507
Query: 126 PFMSPVQVDV-KDNKIAGMQFNRTEQNEKGEWVEDEEQRI-----KLKANYIISAFG 176
+ P + +D ++ + RT E G + + +L A+ +I AFG
Sbjct: 508 FNVQPQYIACDEDGRLTAVGLIRTAMGEPGPDGRRRPRPVAGSEFELPADVLIMAFG 564
>gnl|CDD|237197 PRK12770, PRK12770, putative glutamate synthase subunit beta;
Provisional.
Length = 352
Score = 51.1 bits (123), Expect = 5e-08
Identities = 33/123 (26%), Positives = 60/123 (48%), Gaps = 11/123 (8%)
Query: 62 KESLPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEE 120
E +P ++G V+V+GAG TA D A A+ GA KV + +R+ A E++
Sbjct: 164 WEKVPPVEGKKVVVVGAGLTAVDAALEAVLLGAEKVYLAYRRTINEAPAGKYEIERLIAR 223
Query: 121 KCEFLPFMSPVQVDVKDNKIAGMQFNRTEQNEKGEW-------VEDEEQRIKLKANYIIS 173
EFL ++PV++ + + ++ G++ + E E + E L+A+ ++
Sbjct: 224 GVEFLELVTPVRI-IGEGRVEGVELAKMRLGEPDESGRPRPVPIPGSE--FVLEADTVVF 280
Query: 174 AFG 176
A G
Sbjct: 281 AIG 283
>gnl|CDD|139246 PRK12814, PRK12814, putative NADPH-dependent glutamate synthase
small subunit; Provisional.
Length = 652
Score = 50.5 bits (121), Expect = 9e-08
Identities = 44/175 (25%), Positives = 77/175 (44%), Gaps = 19/175 (10%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEEMGFYTSKTFLPRVATSSKKGLCGGCKKESL 65
L+K+ + A+ + +G A+ + I G E G + FL VA +
Sbjct: 275 LQKE-FDAVLLAVGAQKASKMGI-PG-EELPGVISGIDFLRNVALGTA------------ 319
Query: 66 PILKGTVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEFL 125
V+V+G G+TA D A +ALR GA V +++R+ + A E++ A E
Sbjct: 320 LHPGKKVVVIGGGNTAIDAARTALRLGAESVTILYRRTREEMPANRAEIEEALAEGVSLR 379
Query: 126 PFMSPVQVDVKDNKIA----GMQFNRTEQNEKGEWVEDEEQRIKLKANYIISAFG 176
+PV ++ + + MQ +++ + V E L+A+ +ISA G
Sbjct: 380 ELAAPVSIERSEGGLELTAIKMQQGEPDESGRRRPVPVEGSEFTLQADTVISAIG 434
>gnl|CDD|183740 PRK12779, PRK12779, putative bifunctional glutamate synthase
subunit beta/2-polyprenylphenol hydroxylase;
Provisional.
Length = 944
Score = 47.1 bits (112), Expect = 1e-06
Identities = 42/131 (32%), Positives = 62/131 (47%), Gaps = 17/131 (12%)
Query: 6 LRKDGYTAIFIGIGKPNANVIPIFQGLTEE--MGFYTSKTFLPRVATSSKKGLCGGCKKE 63
L+ G+ IF+G G +P F + E +G ++ FL RV L G +
Sbjct: 388 LKAAGFWKIFVGTGAG----LPTFMNVPGEHLLGVMSANEFLTRV------NLMRGLDDD 437
Query: 64 ---SLPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWE 119
LP +KG V V+G G+TA D A +A R G N V +V+R+ + + A EE+ A E
Sbjct: 438 YETPLPEVKGKEVFVIGGGNTAMDAARTAKRLGGN-VTIVYRRTKSEMPARVEELHHALE 496
Query: 120 EKCEFLPFMSP 130
E +P
Sbjct: 497 EGINLAVLRAP 507
>gnl|CDD|172486 PRK13984, PRK13984, putative oxidoreductase; Provisional.
Length = 604
Score = 45.5 bits (108), Expect = 4e-06
Identities = 30/115 (26%), Positives = 58/115 (50%), Gaps = 10/115 (8%)
Query: 72 VIVLGAGDTAFDCATSALRC-----GANKVLVVFRKGC-TNIRAVPEEVQLAWEEKCEFL 125
++V+G G+ A D A S R G V V + + A EE++ EE
Sbjct: 421 LVVIGGGNVAMDIARSMARLQKMEYGEVNVKVTSLERTFEEMPADMEEIEEGLEEGVVIY 480
Query: 126 PFMSPVQVDVKDNKIAGMQFNRTEQ--NEKGEWVE--DEEQRIKLKANYIISAFG 176
P P++V ++++K+ G++F + + +E+G + DE +I ++A+ ++ A G
Sbjct: 481 PGWGPMEVVIENDKVKGVKFKKCVEVFDEEGRFNPKFDESDQIIVEADMVVEAIG 535
>gnl|CDD|162300 TIGR01317, GOGAT_sm_gam, glutamate synthases, NADH/NADPH, small
subunit. This model represents one of three built for
the NADPH-dependent or NADH-dependent glutamate synthase
(EC 1.4.1.13 and 1.4.1.14, respectively) small subunit
or homologous region. TIGR01316 describes a family in
several archaeal and deeply branched bacterial lineages
of a homotetrameric form for which there is no large
subunit. Another model describes glutamate synthase
small subunit from gamma and some alpha subdivision
Proteobacteria plus paralogs of unknown function. This
model describes the small subunit, or homologous region
of longer forms proteins, of eukaryotes, Gram-positive
bacteria, cyanobacteria, and some other lineages. All
members with known function participate in NADH or
NADPH-dependent reactions to interconvert between
glutamine plus 2-oxoglutarate and two molecules of
glutamate.
Length = 485
Score = 33.3 bits (76), Expect = 0.059
Identities = 30/99 (30%), Positives = 45/99 (45%), Gaps = 17/99 (17%)
Query: 5 KLRKDGYTAIFIGIGKPNANVIPI----FQGLTEEMGFYTSKTFLPRVATSSKKGLCGGC 60
+L++ + A+ + G +PI +G+ M F S T K L G
Sbjct: 224 ELKEQ-FDAVVLAGGATKPRDLPIPGRELKGIHYAMEFLPSAT----------KALLGKD 272
Query: 61 KKESLPI-LKGT-VIVLGAGDTAFDCATSALRCGANKVL 97
K+ + I KG V+V+G GDT DC ++LR GA V
Sbjct: 273 FKDIIFIKAKGKKVVVIGGGDTGADCVGTSLRHGAASVH 311
>gnl|CDD|219686 pfam07992, Pyr_redox_2, Pyridine nucleotide-disulphide
oxidoreductase. This family includes both class I and
class II oxidoreductases and also NADH oxidases and
peroxidases. This domain is actually a small NADH
binding domain within a larger FAD binding domain.
Length = 283
Score = 32.3 bits (74), Expect = 0.089
Identities = 22/113 (19%), Positives = 41/113 (36%), Gaps = 11/113 (9%)
Query: 64 SLPILKGTVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCE 123
L L V+V+G G + A + + G +V R + +E+ A EK E
Sbjct: 137 ELLELPKRVVVVGGGYIGLELAAALAKLGKEVTVVERRDRL--LARADDEISAALLEKLE 194
Query: 124 FLPFMSPVQVDVKDNKIAGMQFNRTEQNEKGEWVEDEEQRIKLKANYIISAFG 176
L + + + + K V+ + +L A+ ++ A G
Sbjct: 195 KL--------LLGVTVLLVVVVVVKVGDGKVVEVKLGD-GEELDADVVLVAIG 238
>gnl|CDD|148675 pfam07213, DAP10, DAP10 membrane protein. This family consists of
several mammalian DAP10 membrane proteins. In activated
mouse natural killer (NK) cells, the NKG2D receptor
associates with two intracellular adaptors, DAP10 and
DAP12, which trigger phosphatidyl inositol 3 kinase
(PI3K) and Syk family protein tyrosine kinases,
respectively. It has been suggested that the DAP10-PI3K
pathway is sufficient to initiate NKG2D-mediated killing
of target cells.
Length = 79
Score = 30.3 bits (68), Expect = 0.15
Identities = 24/70 (34%), Positives = 29/70 (41%), Gaps = 15/70 (21%)
Query: 44 FLPRVATSSKKGLCGGCKKESLPILKGTVIVLGAGDTAFDCATSALRCGANKVLVVFRKG 103
LP A + G C GC SLP+L G V A D S L G VVF
Sbjct: 12 LLPVAAAQTTPGSCSGCGPLSLPLLAGLV--------AADAVMSLLIVG-----VVFV-- 56
Query: 104 CTNIRAVPEE 113
C +R+ P +
Sbjct: 57 CARLRSRPAQ 66
>gnl|CDD|204277 pfam09636, XkdW, XkdW protein. This protein of approx. 100
residues contains two alpha helices and two beta strands
and is probably monomeric. It is expressed in bacteria
but is probably viral in origin. Its function is
unknown.
Length = 97
Score = 28.8 bits (64), Expect = 0.63
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 106 NIRA-VPEEVQL--AWEEKCEFLPFMSPVQVDVKDNKIAGMQFNRTEQNEKGEWVEDEEQ 162
N+RA +P E +L WEE P+ P QVD+ +++ + R + E + + +E
Sbjct: 35 NLRAPLPTEAELKTWWEELQSNPPYEPPDQVDLLAQELSQEKLARKQLEELNKTLGNELS 94
Query: 163 RIK 165
IK
Sbjct: 95 DIK 97
>gnl|CDD|223566 COG0492, TrxB, Thioredoxin reductase [Posttranslational
modification, protein turnover, chaperones].
Length = 305
Score = 30.0 bits (68), Expect = 0.68
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 72 VIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLA 117
V+V+G GD+A + A + A KV +V R+ RA V+
Sbjct: 146 VVVIGGGDSAVEEALYLSK-IAKKVTLVHRRDE--FRAEEILVERL 188
>gnl|CDD|130536 TIGR01470, cysG_Nterm, siroheme synthase, N-terminal domain. This
model represents a subfamily of CysG N-terminal
region-related sequences. All sequences in the seed
alignment for this model are N-terminal regions of known
or predicted siroheme synthases. The C-terminal region
of each is uroporphyrin-III C-methyltransferase (EC
2.1.1.107), which catalyzes the first step committed to
the biosynthesis of either siroheme or cobalamin
(vitamin B12) rather than protoheme (heme). The region
represented by this model completes the process of
oxidation and iron insertion to yield siroheme. Siroheme
is a cofactor for nitrite and sulfite reductases, so
siroheme synthase is CysG of cysteine biosynthesis in
some organisms [Biosynthesis of cofactors, prosthetic
groups, and carriers, Heme, porphyrin, and cobalamin].
Length = 205
Score = 29.3 bits (66), Expect = 0.78
Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 65 LPI---LKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEE 120
LP+ L+G V+V+G GD A A L+ GA ++ V+ + + + + E+ + W
Sbjct: 1 LPVFANLEGRAVLVVGGGDVALRKARLLLKAGA-QLRVIAEELESELTLLAEQGGITWLA 59
Query: 121 KC 122
+C
Sbjct: 60 RC 61
>gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit
beta/beta'; Provisional.
Length = 2836
Score = 29.2 bits (65), Expect = 1.5
Identities = 20/60 (33%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 19 GKPNANVIPIFQGLT----EEMGFYTSKTFLPRVATSSKKGLCGGCKKESLPILKGTVIV 74
GK A+ +PI QG+T E F ++ +F ++ CG K + L LK VIV
Sbjct: 2717 GKRPAHYLPILQGITRASLETSSFISAASFQETTKVLTEAAFCG--KSDPLSGLKENVIV 2774
>gnl|CDD|133452 cd05213, NAD_bind_Glutamyl_tRNA_reduct, NADP-binding domain of
glutamyl-tRNA reductase. Glutamyl-tRNA reductase
catalyzes the conversion of glutamyl-tRNA to
glutamate-1-semialdehyde, initiating the synthesis of
tetrapyrrole. Whereas tRNAs are generally associated
with peptide bond formation in protein translation, here
the tRNA activates glutamate in the initiation of
tetrapyrrole biosynthesis in archaea, plants and many
bacteria. In the first step, activated glutamate is
reduced to glutamate-1-semi-aldehyde via the NADPH
dependent glutamyl-tRNA reductase. Glutamyl-tRNA
reductase forms a V-shaped dimer. Each monomer has 3
domains: an N-terminal catalytic domain, a classic
nucleotide binding domain, and a C-terminal dimerization
domain. Although the representative structure 1GPJ lacks
a bound NADPH, a theoretical binding pocket has been
described. (PMID 11172694). Amino acid dehydrogenase
(DH)-like NAD(P)-binding domains are members of the
Rossmann fold superfamily and include glutamate,
leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DH, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 311
Score = 28.8 bits (65), Expect = 1.6
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 8/64 (12%)
Query: 65 LPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCE 123
LKG V+V+GAG+ A G ++ + R T RA +LA E
Sbjct: 173 FGNLKGKKVLVIGAGEMGELAAKHLAAKGVAEITIANR---TYERA----EELAKELGGN 225
Query: 124 FLPF 127
+P
Sbjct: 226 AVPL 229
>gnl|CDD|176242 cd08282, PFDH_like, Pseudomonas putida aldehyde-dismutating
formaldehyde dehydrogenase (PFDH). Formaldehyde
dehydrogenase (FDH) is a member of the
zinc-dependent/medium chain alcohol dehydrogenase
family. Unlike typical FDH, Pseudomonas putida
aldehyde-dismutating FDH (PFDH) is
glutathione-independent. PFDH converts 2 molecules of
aldehydes to corresponding carboxylic acid and alcohol.
MDH family uses NAD(H) as a cofactor in the
interconversion of alcohols and aldehydes, or ketones.
Like the zinc-dependent alcohol dehydrogenases (ADH) of
the medium chain alcohol dehydrogenase/reductase family
(MDR), these tetrameric FDHs have a catalytic zinc that
resides between the catalytic and NAD(H)binding domains
and a structural zinc in a lobe of the catalytic domain.
Unlike ADH, where NAD(P)(H) acts as a cofactor, NADH in
FDH is a tightly bound redox cofactor (similar to
nicotinamide proteins). The medium chain alcohol
dehydrogenase family (MDR) has a NAD(P)(H)-binding
domain in a Rossmann fold of an beta-alpha form. The
N-terminal region typically has an all-beta catalytic
domain. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit.
Length = 375
Score = 28.7 bits (65), Expect = 1.8
Identities = 19/47 (40%), Positives = 23/47 (48%), Gaps = 8/47 (17%)
Query: 71 TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLA 117
TV V GAG A SA+ GA++V VV VPE + LA
Sbjct: 179 TVAVFGAGPVGLMAAYSAILRGASRVYVVDH--------VPERLDLA 217
>gnl|CDD|133443 cd01065, NAD_bind_Shikimate_DH, NAD(P) binding domain of Shikimate
dehydrogenase. Shikimate dehydrogenase (DH) is an amino
acid DH family member. Shikimate pathway links
metabolism of carbohydrates to de novo biosynthesis of
aromatic amino acids, quinones and folate. It is
essential in plants, bacteria, and fungi but absent in
mammals, thus making enzymes involved in this pathway
ideal targets for broad spectrum antibiotics and
herbicides. Shikimate DH catalyzes the reduction of
3-hydroshikimate to shikimate using the cofactor NADH.
Amino acid DH-like NAD(P)-binding domains are members of
the Rossmann fold superfamily and include glutamate,
leucine, and phenylalanine DHs, methylene
tetrahydrofolate DH, methylene-tetrahydromethanopterin
DH, methylene-tetrahydropholate DH/cyclohydrolase,
Shikimate DH-like proteins, malate oxidoreductases, and
glutamyl tRNA reductase. Amino acid DHs catalyze the
deamination of amino acids to keto acids with NAD(P)+ as
a cofactor. The NAD(P)-binding Rossmann fold superfamily
includes a wide variety of protein families including
NAD(P)- binding domains of alcohol DHs,
tyrosine-dependent oxidoreductases,
glyceraldehyde-3-phosphate DH, lactate/malate DHs,
formate/glycerate DHs, siroheme synthases,
6-phosphogluconate DHs, amino acid DHs, repressor rex,
NAD-binding potassium channel domain, CoA-binding, and
ornithine cyclodeaminase-like domains. These domains
have an alpha-beta-alpha configuration. NAD binding
involves numerous hydrogen and van der Waals contacts.
Length = 155
Score = 28.0 bits (63), Expect = 1.9
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 62 KESLPILKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFR 101
+E+ LKG V++LGAG A A + GA K+++V R
Sbjct: 11 EEAGIELKGKKVLILGAGGAARAVAYALAELGAAKIVIVNR 51
>gnl|CDD|188692 cd08738, RGS_RGS7, Regulator of G protein signaling (RGS) domain
found in the RGS7 protein. The RGS (Regulator of
G-protein Signaling) domain is an essential part of the
RGS7 protein, a member of R7 subfamily of the RGS
protein family. RGS is a diverse group of
multifunctional proteins that regulate cellular
signaling events downstream of G-protein coupled
receptors (GPCRs). As a major G-protein regulator, RGS
domain containing proteins are involved in many crucial
cellular processes such as regulation of intracellular
trafficking, glial differentiation, embryonic axis
formation, skeletal and muscle development, and cell
migration during early embryogenesis. As a major
G-protein regulator, RGS domain containing proteins are
involved in many crucial cellular processes such as
regulation of intracellular trafficking, glial
differentiation, embryonic axis formation, skeletal and
muscle development, and cell migration during early
embryogenesis. Other members of the R7 subfamily
(Neuronal RGS) include: RGS6, RGS9, and RGS11, all of
which are expressed predominantly in the nervous system,
form an obligatory complex with G-beta-5, and play
important roles in the regulation of crucial neuronal
processes such as vision and motor control.
Additionally they have been implicated in many
neurological conditions such as anxiety, schizophrenia,
and drug dependence. R7 RGS proteins are key modulators
of the pharmacological effects of drugs involved in the
development of tolerance and addiction. In addition,
RGS7 was found to bind a component of the synaptic
fusion complex, snapin, and some other proteins outside
of G protein signaling pathways.
Length = 121
Score = 27.8 bits (61), Expect = 2.2
Identities = 20/61 (32%), Positives = 33/61 (54%), Gaps = 11/61 (18%)
Query: 107 IRAVPEEVQLAWEEKCEFLPFMSPVQVDVKDNKIAGMQFNRTEQN--EKGEWV-EDEEQR 163
IR VP VQ W+ EFL +P +++ D+K +++T QN + G + ED ++
Sbjct: 49 IREVPSRVQEIWQ---EFLAPGAPSAINL-DSK----SYDKTTQNVKDPGRYTFEDAQEH 100
Query: 164 I 164
I
Sbjct: 101 I 101
>gnl|CDD|215245 PLN02446, PLN02446,
(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase.
Length = 262
Score = 28.1 bits (63), Expect = 2.2
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 25/80 (31%)
Query: 67 ILKGTVIVLGAGDTAFDCATSALRC----------------------GANKVLV---VFR 101
+ G VI+LGA D + A ALR GA+ V+V VFR
Sbjct: 57 LTGGHVIMLGADDASLAAALEALRAYPGGLQVGGGVNSENAMSYLDAGASHVIVTSYVFR 116
Query: 102 KGCTNIRAVPEEVQLAWEEK 121
G ++ + + V+L +++
Sbjct: 117 DGQIDLERLKDLVRLVGKQR 136
>gnl|CDD|184298 PRK13748, PRK13748, putative mercuric reductase; Provisional.
Length = 561
Score = 28.2 bits (63), Expect = 2.5
Identities = 19/63 (30%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 55 GLCGGCKKESLPILKGTVIVLGAGDTAFDCATSALRCGANKVLV---VFRKGCTNIRAVP 111
G GG K S V V+G+G A A A+ GA L+ C N+ VP
Sbjct: 84 GWLGGADKHSGNERPLHVAVIGSGGAAMAAALKAVEQGARVTLIERGTIGGTCVNVGCVP 143
Query: 112 EEV 114
++
Sbjct: 144 SKI 146
>gnl|CDD|222355 pfam13738, Pyr_redox_3, Pyridine nucleotide-disulphide
oxidoreductase.
Length = 202
Score = 27.7 bits (62), Expect = 2.8
Identities = 16/36 (44%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 68 LKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRK 102
LKG TV V+G G TA D A + L G V + R+
Sbjct: 164 LKGKTVAVIGGGHTAIDAALNLLDLGK-DVTWITRR 198
>gnl|CDD|240400 PTZ00396, PTZ00396, Casein kinase II subunit beta; Provisional.
Length = 251
Score = 27.7 bits (62), Expect = 2.9
Identities = 9/26 (34%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 22 NANVIPIFQGLTEEMGFYTSKTFLPR 47
NV+PI GL++ + K + PR
Sbjct: 130 GQNVLPI--GLSDVLKTSRVKVYCPR 153
>gnl|CDD|215457 PLN02852, PLN02852, ferredoxin-NADP+ reductase.
Length = 491
Score = 28.1 bits (63), Expect = 3.2
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 71 TVIVLGAGDTAFDCATSALRCGA 93
T +VLG G+ A DCA LR
Sbjct: 168 TAVVLGQGNVALDCARILLRPTD 190
>gnl|CDD|234592 PRK00045, hemA, glutamyl-tRNA reductase; Reviewed.
Length = 423
Score = 27.8 bits (63), Expect = 3.4
Identities = 20/61 (32%), Positives = 26/61 (42%), Gaps = 8/61 (13%)
Query: 68 LKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAWEEKCEFLP 126
L G V+V+GAG+ A G K+ V R T RA +LA E E +P
Sbjct: 180 LSGKKVLVIGAGEMGELVAKHLAEKGVRKITVANR---TLERA----EELAEEFGGEAIP 232
Query: 127 F 127
Sbjct: 233 L 233
>gnl|CDD|237806 PRK14727, PRK14727, putative mercuric reductase; Provisional.
Length = 479
Score = 27.6 bits (61), Expect = 3.8
Identities = 23/109 (21%), Positives = 43/109 (39%), Gaps = 14/109 (12%)
Query: 52 SKKGLCGGCKKESLPILKGTVIVLGAGDTAFDCATSALRCGANKVLVVFRKG-----CTN 106
+ +G + L + V ++G+G AF A A GA +V ++ C N
Sbjct: 2 NAQGSSNCMTRSKLQL---HVAIIGSGSAAFAAAIKAAEHGA-RVTIIEGADVIGGCCVN 57
Query: 107 IRAVPEEV-----QLAWEEKCEFLPFMSPVQVDVKDNKIAGMQFNRTEQ 150
+ VP ++ QLA +++ + V + + Q R E+
Sbjct: 58 VGCVPSKILIRAAQLAHQQRSNPFDGVEAVAPSIDRGLLLHQQQARVEE 106
>gnl|CDD|226076 COG3546, COG3546, Mn-containing catalase [Inorganic ion transport
and metabolism].
Length = 277
Score = 27.4 bits (61), Expect = 4.1
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 10/56 (17%)
Query: 115 QLAWEE-----KCEFLPFMSPVQ---VDVKDNKIAGMQFNRTEQNEK--GEWVEDE 160
Q A+ + + E P PV ++ N NR+E +E +V
Sbjct: 179 QNAFRKALESLENEEDPKKLPVPNFPRKLEKNGSHNTLDNRSEWDESPIFRYVSGP 234
>gnl|CDD|238577 cd01172, RfaE_like, RfaE encodes a bifunctional ADP-heptose
synthase involved in the biosynthesis of the
lipopolysaccharide (LPS) core precursor
ADP-L-glycero-D-manno-heptose. LPS plays an important
role in maintaining the structural integrity of the
bacterial outer membrane of gram-negative bacteria. RfaE
consists of two domains, a sugar kinase domain,
represented here, and a domain belonging to the
cytidylyltransferase superfamily.
Length = 304
Score = 27.1 bits (61), Expect = 5.4
Identities = 11/27 (40%), Positives = 12/27 (44%)
Query: 74 VLGAGDTAFDCATSALRCGANKVLVVF 100
V GAGDT AL GA+ F
Sbjct: 253 VTGAGDTVIATLALALAAGADLEEAAF 279
>gnl|CDD|235767 PRK06277, PRK06277, hydrogenase subunit F; Validated.
Length = 478
Score = 26.9 bits (60), Expect = 7.7
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 10 GYTAIFIGIGKPNANVIPIFQGLTEEMGFYTSKTFL 45
GY A + +G P V IF + + Y S FL
Sbjct: 303 GYVAAGLALGTPLGIVAGIFHAINHVI--YKSALFL 336
>gnl|CDD|143556 cd07447, CRD_Carboxypeptidase_Z, Cysteine-rich domain of
carboxypeptidase Z, a member of the carboxypeptidase E
family. The cysteine-rich-domain (CRD) is an essential
part of carboxypeptidase Z, a member of the
carboxypeptidase E family of metallocarboxypeptidases.
This is a group of Zn-dependent enzymes implicated in
the intra- and extracellular processing of proteins.
Carboxypeptidase Z removes C-terminal basic amino acid
residues from its substrates, particularly arginine. The
CRD acts as a ligand-binding domain for Wnts involved in
developmental processes. CPZ binds and may process
Wnt-4, CPZ has also been found to enhance the induction
of the homeobox gene Cdx1. During vertebrate
embryogenesis, the CRD of CPZ upregulates Pax3, a Wnt
reporter gene essential for patterning of somites and
limb development.
Length = 128
Score = 25.9 bits (57), Expect = 8.1
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 4/39 (10%)
Query: 84 CATSALRCGANKVLVVFRKGCTNIRAVP----EEVQLAW 118
C+ A RC +KV+ R C +R + +Q+AW
Sbjct: 63 CSVLAPRCENDKVIKPCRSTCEALRKRCSHAFDAIQMAW 101
>gnl|CDD|236214 PRK08274, PRK08274, tricarballylate dehydrogenase; Validated.
Length = 466
Score = 26.8 bits (60), Expect = 8.2
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 72 VIVLGAGDTAFDCATSALRCGANKVLVV 99
V+V+G G+ A A +A GA VL++
Sbjct: 7 VLVIGGGNAALCAALAAREAGA-SVLLL 33
>gnl|CDD|224562 COG1648, CysG, Siroheme synthase (precorrin-2
oxidase/ferrochelatase domain) [Coenzyme metabolism].
Length = 210
Score = 26.5 bits (59), Expect = 8.6
Identities = 21/64 (32%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 63 ESLPI---LKG-TVIVLGAGDTAFDCATSALRCGANKVLVVFRKGCTNIRAVPEEVQLAW 118
LP+ L+G V+V+G G A A L+ GA V VV + ++A+ EE ++ W
Sbjct: 2 NYLPLFLDLEGKKVLVVGGGSVALRKARLLLKAGA-DVTVVSPEFEPELKALIEEGKIKW 60
Query: 119 EEKC 122
E+
Sbjct: 61 IERE 64
>gnl|CDD|182379 PRK10325, PRK10325, heat shock protein GrpE; Provisional.
Length = 197
Score = 26.2 bits (57), Expect = 8.6
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 2/49 (4%)
Query: 111 PEEVQLAWEEKCEFL-PFMSPVQVDVKDNKIAGMQFNRTE-QNEKGEWV 157
PEE+ + E+ E + P S QVD +D KIA ++ E Q + + +
Sbjct: 14 PEEIIMDQHEEIEAVEPEASAEQVDPRDEKIANLEAQLAEAQTRERDGI 62
>gnl|CDD|223494 COG0417, PolB, DNA polymerase elongation subunit (family B) [DNA
replication, recombination, and repair].
Length = 792
Score = 26.6 bits (59), Expect = 9.3
Identities = 10/54 (18%), Positives = 21/54 (38%), Gaps = 6/54 (11%)
Query: 119 EEKCEFLPFMSPVQVDVKDNKIAGMQFNRTEQNEKGEWVEDEEQRIKLKANYII 172
K E LP + + ++++G+ + + G VE R + +I
Sbjct: 347 LLKNELLPLLIEL------SRVSGLPLDDVTRAGSGARVEGLLLREAKRRGELI 394
>gnl|CDD|235955 PRK07190, PRK07190, hypothetical protein; Provisional.
Length = 487
Score = 26.3 bits (58), Expect = 9.8
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 72 VIVLGAGDTAFDCATSALRCGANKVLV 98
V+++GAG CA CG N V+V
Sbjct: 8 VVIIGAGPVGLMCAYLGQLCGLNTVIV 34
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
0.319 0.137 0.407
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,158,778
Number of extensions: 817839
Number of successful extensions: 804
Number of sequences better than 10.0: 1
Number of HSP's gapped: 792
Number of HSP's successfully gapped: 54
Length of query: 183
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 92
Effective length of database: 6,901,388
Effective search space: 634927696
Effective search space used: 634927696
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 (21.7 bits)
S2: 56 (25.3 bits)