RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2679
(526 letters)
>gnl|CDD|215849 pfam00307, CH, Calponin homology (CH) domain. The CH domain is
found in both cytoskeletal proteins and signal
transduction proteins. The CH domain is involved in
actin binding in some members of the family. However in
calponins there is evidence that the CH domain is not
involved in its actin binding activity. Most member
proteins have from two to four copies of the CH domain,
however some proteins such as calponin have only a
single copy.
Length = 104
Score = 63.8 bits (156), Expect = 1e-12
Identities = 30/102 (29%), Positives = 47/102 (46%), Gaps = 4/102 (3%)
Query: 95 VLIEWINDELA-DQRIIVKDLEEDLYDGQILQKLLEKLNQEKLDVPEVTQSEEGQKQKLA 153
L+ WIN+ L + V + EDL DG L LL KL +D+ +V ++ + + L
Sbjct: 3 ALLRWINEVLGEYGGLPVTNFFEDLRDGLALCALLNKLRPGLIDLKKVNKNRFDKLENLN 62
Query: 154 IVLEAVNKALGLPRWSNTKWSVESIHSKNLVPILHLLVSLAL 195
+ LE K LG+P+ + + N +L LL L
Sbjct: 63 LALEFAEKKLGVPKV-LEPEDL--VEDGNEKLVLTLLAQLFR 101
Score = 28.0 bits (63), Expect = 4.5
Identities = 14/60 (23%), Positives = 28/60 (46%), Gaps = 3/60 (5%)
Query: 248 LDVPEVTQSEEGQKQKLAIVLEAVNKALGLPRWSNTKWSVESIHSKNLVPILHLLVSLKK 307
+D+ +V ++ + + L + LE K LG+P+ + + N +L LL L +
Sbjct: 45 IDLKKVNKNRFDKLENLNLALEFAEKKLGVPKV-LEPEDL--VEDGNEKLVLTLLAQLFR 101
>gnl|CDD|218079 pfam04420, CHD5, CHD5-like protein. Members of this family are
probably coiled-coil proteins that are similar to the
CHD5 (Congenital heart disease 5) protein. In
Saccharomyces cerevisiae this protein localises to the
ER and is thought to play a homeostatic role.
Length = 161
Score = 45.0 bits (107), Expect = 1e-05
Identities = 27/98 (27%), Positives = 41/98 (41%), Gaps = 14/98 (14%)
Query: 423 DEFAKHARLSRKISALQAQLEKECKLNAESCNKIKTMITS-ILNCLWVLIVAVAFMNSTA 481
DEFAK A+L+RK+ L +LEK K +K K ++ L + + F
Sbjct: 63 DEFAKWAKLNRKLDKLTDELEKLKKELTAQKSKFKWVLKKLRLLLTTGPMWFLRFWYRKT 122
Query: 482 PVVRIPQKWM---------LPLSYFGYAPWSIGFTSWM 510
PV +P+ W P + G S+ T W+
Sbjct: 123 PVFVLPKGWFPYPVEWVLSFPRAPLG----SVSLTIWL 156
>gnl|CDD|237981 cd00014, CH, Calponin homology domain; actin-binding domain which
may be present as a single copy or in tandem repeats
(which increases binding affinity). The CH domain is
found in cytoskeletal and signal transduction proteins,
including actin-binding proteins like spectrin,
alpha-actinin, dystrophin, utrophin, and fimbrin,
proteins essential for regulation of cell shape
(cortexillins), and signaling proteins (Vav).
Length = 107
Score = 33.8 bits (78), Expect = 0.046
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 3/74 (4%)
Query: 96 LIEWINDELA-DQRIIVKDLEEDLYDGQILQKLLEKLNQEKLDVPEVTQ-SEEGQKQKLA 153
L+ WIN L + + + DL DG L KLL L+ + +D ++ S + + +
Sbjct: 6 LLRWINKVLGEYGPVTINNFSTDLKDGIALCKLLNSLSPDLIDKKKINPLSRFKRLENIN 65
Query: 154 IVLEAVNKALGLPR 167
+ L + LG+P
Sbjct: 66 LALNFA-EKLGVPV 78
>gnl|CDD|225470 COG2918, GshA, Gamma-glutamylcysteine synthetase [Coenzyme
metabolism].
Length = 518
Score = 35.1 bits (81), Expect = 0.081
Identities = 29/111 (26%), Positives = 44/111 (39%), Gaps = 12/111 (10%)
Query: 61 PDLAPEEYAL-EENEERSMLEPRAYDDPKLQELI------FVLIEWINDELADQRIIVKD 113
P++ E L +N R LE R P L I L E + D RI+ +
Sbjct: 363 PEMDESELELTRDNWNRVALEGR---KPGLTLGIGCDNEQLPLQEVGKELFEDLRIVAQT 419
Query: 114 LEEDLYDGQILQKLLEKLNQEKLDVPEVTQSEEGQKQKLAIVLEAVNKALG 164
L+ + G+ Q + E+L KL PE+T S + +Q + A
Sbjct: 420 LDSNN-GGEAYQAVCEEL-VAKLANPELTFSAQILRQMKDTGIGRFGLAFA 468
>gnl|CDD|214479 smart00033, CH, Calponin homology domain. Actin binding domains
present in duplicate at the N-termini of spectrin-like
proteins (including dystrophin, alpha-actinin). These
domains cross-link actin filaments into bundles and
networks. A calponin homology domain is predicted in
yeasst Cdc24p.
Length = 101
Score = 32.7 bits (75), Expect = 0.083
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 96 LIEWINDELA-DQRIIVKDLEEDLYDGQILQKLLEKLNQEKLD 137
L+ W+N LA + V + DL DG L LL L+ +D
Sbjct: 3 LLRWVNSLLAEYDKPPVTNFSSDLKDGVALCALLNSLSPGLVD 45
>gnl|CDD|236465 PRK09319, PRK09319, bifunctional 3,4-dihydroxy-2-butanone
4-phosphate synthase/GTP cyclohydrolase II/unknown
domain fusion protein; Provisional.
Length = 555
Score = 34.9 bits (81), Expect = 0.11
Identities = 35/142 (24%), Positives = 50/142 (35%), Gaps = 32/142 (22%)
Query: 110 IVKDLEEDLYDGQILQKLLEKLNQEKLDVPEVTQSEEGQKQKLAIVLEAVNKALGL---- 165
I + + Y +LLEKL + L + EA +AL L
Sbjct: 411 IAIAWDGEPYSVTERYELLEKLRHL------------ARSHGLLLQEEARPRALALFDRP 458
Query: 166 ----------PRWSNTKWSVESIHSKNLVPILHLLVSLALGLPRWSNTKWSVESIHSKNL 215
+ ++ W +S H + I LL LA +W NTK + + S
Sbjct: 459 SLVWHLGFDQNKVASADWYKQSNHP-YIKAIELLLDELA----QWPNTK-RLGFLISSGD 512
Query: 216 VPILHLLVSLVRHFRAPVRLPE 237
P LHL V L R + LP
Sbjct: 513 DPALHLQVQLDRQELSLAELPS 534
Score = 31.1 bits (71), Expect = 1.5
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 7/86 (8%)
Query: 243 VVVVQLDVPEVTQSEEGQKQKLAIVLEAVNKALG-LPRWSNTKWSVESIHSKNLVPILHL 301
V + D +V S + KQ ++A+ L L +W NTK + + S P LHL
Sbjct: 461 VWHLGFDQNKVA-SADWYKQSNHPYIKAIELLLDELAQWPNTK-RLGFLISSGDDPALHL 518
Query: 302 LVSLKKEGSLSHRTIKEEITSTYDDL 327
V L ++ ++ E +S Y L
Sbjct: 519 QVQLDRQ----ELSLAELPSSLYSPL 540
>gnl|CDD|176217 cd08255, 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_like,
2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and
other MDR family members. This subgroup of the medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family has members identified
as 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A
dehydrogenase and alcohol dehydrogenases. The medium
chain dehydrogenases/reductase (MDR)/zinc-dependent
alcohol dehydrogenase-like family, which contains the
zinc-dependent alcohol dehydrogenase (ADH-Zn) and
related proteins, is a diverse group of proteins related
to the first identified member, class I mammalian ADH.
MDRs display a broad range of activities and are
distinguished from the smaller short chain
dehydrogenases (~ 250 amino acids vs. the ~ 350 amino
acids of the MDR). The MDR proteins have 2 domains: a
C-terminal NAD(P) binding-Rossmann fold domain of a
beta-alpha form and an N-terminal catalytic domain with
distant homology to GroES. The MDR group contains a
host of activities, including the founding alcohol
dehydrogenase (ADH), quinone reductase, sorbitol
dehydrogenase, formaldehyde dehydrogenase, butanediol
DH, ketose reductase, cinnamyl reductase, and numerous
others. The zinc-dependent alcohol dehydrogenases (ADHs)
catalyze the NAD(P)(H)-dependent interconversion of
alcohols to aldehydes or ketones. Active site zinc has
a catalytic role, while structural zinc aids in
stability.
Length = 277
Score = 32.2 bits (74), Expect = 0.49
Identities = 18/85 (21%), Positives = 34/85 (40%), Gaps = 18/85 (21%)
Query: 268 LEAVNKALGLPRWS--NTKWSVESIHSKNLVPILHLLVSLKKEGSLSHRTIKEEITSTYD 325
L + + +W+ ++NL L LL + E ++HR ++
Sbjct: 208 LPIRSSQVYGIGRYDRPRRWT----EARNLEEALDLLAEGRLEALITHR-------VPFE 256
Query: 326 DLGMRCERDAFDTLFDHHPDKLQVV 350
D +A+ LF+ P+ L+VV
Sbjct: 257 DAP-----EAYRLLFEDPPECLKVV 276
>gnl|CDD|177244 MTH00197, ND2, NADH dehydrogenase subunit 2; Provisional.
Length = 323
Score = 30.4 bits (69), Expect = 2.1
Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 16/71 (22%)
Query: 452 SCNKIKTMITSILNCLWVLIVAVAFMNSTAPVVRIPQKWMLPLSYFGYAPWSIGFTSWMT 511
S + + +I S+L+ LI + MN + + L Y+ SIG T WM
Sbjct: 133 SSSFMGLLICSVLS---SLIGGIGGMNQSN---------IRQL--LAYS--SIGHTGWML 176
Query: 512 IKIYYTYMFLI 522
+ + Y+ +
Sbjct: 177 MSLVYSPSIFM 187
>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional.
Length = 857
Score = 30.6 bits (69), Expect = 2.3
Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 13/80 (16%)
Query: 123 ILQKLLEKLNQEKLDVPEVTQSEE----------GQKQKLAIVLEAVNKALGLPRWSNTK 172
+L+ EK+ L E + +E G ++LAI +N G+P W
Sbjct: 756 VLEGFYEKMKASGLAGSESSSMDEIEVSKDDIFCGHSERLAIAFGLINTVPGMPIWVTKN 815
Query: 173 WSV-ESIHSKNLVPILHLLV 191
+ E+ H N V + +V
Sbjct: 816 LYMCENCH--NTVKFISKIV 833
>gnl|CDD|238992 cd02035, ArsA, ArsA ATPase functionas as an efflux pump located on
the inner membrane of the cell. This ATP-driven oxyanion
pump catalyzes the extrusion of arsenite, antimonite and
arsenate. Maintenance of a low intracellular
concentration of oxyanion produces resistance to the
toxic agents. The pump is composed of two subunits, the
catalytic ArsA subunit and the membrane subunit ArsB,
which are encoded by arsA and arsB genes respectively.
Arsenic efflux in bacteria is catalyzed by either ArsB
alone or by ArsAB complex. The ATP-coupled pump,
however, is more efficient. ArsA is composed of two
homologous halves, A1 and A2, connected by a short
linker sequence.
Length = 217
Score = 29.9 bits (68), Expect = 2.5
Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 2/62 (3%)
Query: 59 TNPDLAPEEYALEENEERSMLEPRAYDDPKLQELIFVLIEWINDELADQRIIVKDLEEDL 118
+P++AP Y E + R + + + EL L +ELA + ++ E L
Sbjct: 56 EDPEIAPNLYREEVDATRRVERAWGGEGGLMLELAAALPG--IEELASLLAVFREFSEGL 113
Query: 119 YD 120
YD
Sbjct: 114 YD 115
>gnl|CDD|224073 COG1151, COG1151, 6Fe-6S prismane cluster-containing protein
[Energy production and conversion].
Length = 576
Score = 30.5 bits (69), Expect = 2.6
Identities = 12/72 (16%), Positives = 23/72 (31%)
Query: 84 YDDPKLQELIFVLIEWINDELADQRIIVKDLEEDLYDGQILQKLLEKLNQEKLDVPEVTQ 143
++ N + +++ L G LL+K N PE T+
Sbjct: 182 PGGADIEIFDAKASTSTNVDSDPVDLLLHCLRLGGAMGFKAMALLDKANDILFGTPEPTE 241
Query: 144 SEEGQKQKLAIV 155
G + + I+
Sbjct: 242 VNVGDPEYVNIL 253
>gnl|CDD|182225 PRK10077, xylE, D-xylose transporter XylE; Provisional.
Length = 479
Score = 30.4 bits (69), Expect = 2.8
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 7 PKSPRPPVSAKKDDKDESFWDKIGTLGRKKRIKEVQEVEQEGKH 50
P++PR +S K ++ E KI +G + +QE++ H
Sbjct: 215 PETPRYLMSRGKQEQAEGILRKI--MGNTLATQALQEIKHSLDH 256
>gnl|CDD|221721 pfam12698, ABC2_membrane_3, ABC-2 family transporter protein. This
family is related to the ABC-2 membrane transporter
family pfam01061.
Length = 278
Score = 30.0 bits (68), Expect = 3.0
Identities = 7/66 (10%), Positives = 21/66 (31%), Gaps = 4/66 (6%)
Query: 458 TMITSILNCLWVLIVAVAFMNSTAPVVRIPQKWMLPLSYFGYAPWSIGFTSWMTIKIYYT 517
+++ +L+ + + + M S + ++P I + I +
Sbjct: 208 SILILLLSGFFGGLFPLPNMPSFLQWIF----SIIPFFAPIDGLLRIIYGDLAEILLSLI 263
Query: 518 YMFLIC 523
+ L
Sbjct: 264 ILLLFG 269
>gnl|CDD|187578 cd05269, TMR_SDR_a, triphenylmethane reductase (TMR)-like proteins,
NMRa-like, atypical (a) SDRs. TMR is an atypical
NADP-binding protein of the SDR family. It lacks the
active site residues of the SDRs but has a glycine rich
NAD(P)-binding motif that matches the extended SDRs.
Proteins in this subgroup however, are more similar in
length to the classical SDRs. TMR was identified as a
reducer of triphenylmethane dyes, important
environmental pollutants. This subgroup also includes
Escherichia coli NADPH-dependent quinine oxidoreductase
(QOR2), which catalyzes two-electron reduction of
quinone; but is unlikely to play a major role in
protecting against quinone cytotoxicity. Atypical SDRs
are distinct from classical SDRs. Atypical SDRs include
biliverdin IX beta reductase (BVR-B,aka flavin
reductase), NMRa (a negative transcriptional regulator
of various fungi), progesterone 5-beta-reductase like
proteins, phenylcoumaran benzylic ether and
pinoresinol-lariciresinol reductases, phenylpropene
synthases, eugenol synthase, triphenylmethane reductase,
isoflavone reductases, and others. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold, an NAD(P)(H)-binding region, and a structurally
diverse C-terminal region. Sequence identity between
different SDR enzymes is typically in the 15-30% range;
they 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 numbering). In
addition to the Tyr and Lys, there is often an upstream
Ser and/or an Asn, 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. In addition to the
Rossmann fold core region typical of all SDRs, extended
SDRs have a less conserved C-terminal extension of
approximately 100 amino acids, 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.
Length = 272
Score = 29.9 bits (68), Expect = 3.2
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 217 PILHLLVSLVRHFRAPVRLPENVSV----GVVVVQLD 249
++ LL++ V A VR PE GV V Q D
Sbjct: 13 AVVELLLAKVASVVALVRNPEKAKAFAADGVEVRQGD 49
>gnl|CDD|147986 pfam06117, DUF957, Enterobacterial protein of unknown function
(DUF957). This family consists of several hypothetical
proteins from Escherichia coli, Salmonella typhi,
Shigella flexneri and Proteus vulgaris. The function of
this family is unknown.
Length = 65
Score = 27.5 bits (61), Expect = 3.4
Identities = 13/46 (28%), Positives = 21/46 (45%)
Query: 88 KLQELIFVLIEWINDELADQRIIVKDLEEDLYDGQILQKLLEKLNQ 133
+ + VLI+W+ D + I+ D +ED D L +EK
Sbjct: 5 TVMSALDVLIDWLEDNIDMGSDIIFDNDEDNTDSAALLPAVEKARA 50
>gnl|CDD|236142 PRK08051, fre, FMN reductase; Validated.
Length = 232
Score = 29.4 bits (67), Expect = 3.6
Identities = 19/45 (42%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 115 EEDLYDGQILQKLLEKLNQEKLDVPEVTQSEEGQKQKLAIVLEAV 159
E+ LYD L+ L K VP V Q EEG + K VL AV
Sbjct: 142 EDHLYDLDELEALALKHPNLHF-VPVVEQPEEGWQGKTGTVLTAV 185
>gnl|CDD|217631 pfam03595, C4dic_mal_tran, C4-dicarboxylate transporter/malic acid
transport protein. This family of transporters have ten
alpha helical transmembrane segments. The structure of a
bacterial homologue of SLAC1 shows it to have a trimeric
arrangement. The pore is composed of five helices with a
conserved phe residue involved in gating. One homologue,
Mae1 from the yeast Schizosaccharomyces pombe, functions
as a malate uptake transporter; another, Ssu1 from
Saccharomyces cerevisiae and other fungi including
Aspergillus fumigatus, is characterized as a sulphite
efflux pump; and TehA from Escherichia coli is
identified as a tellurite resistance protein by virtue
of its association in the tehA/tehB operon. Many
homologues are incorrectly annotated as tellurite
resistance/dicarboxylate transporter (TDT) proteins.
Length = 314
Score = 29.1 bits (66), Expect = 5.2
Identities = 11/56 (19%), Positives = 21/56 (37%), Gaps = 5/56 (8%)
Query: 468 WVL-IVAVAFMNSTAPVVRIPQKWMLPLSYFGYAPWSIGFTSWMTIKIYYTYMFLI 522
W+L +V + T ++ P L L Y + +G ++ + Y L
Sbjct: 138 WLLPVVGIIVAAVTGALL-APAGPTLELGYLL---FGLGLLLYLVLLPLVLYRLLF 189
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 29.3 bits (66), Expect = 5.7
Identities = 17/105 (16%), Positives = 32/105 (30%), Gaps = 8/105 (7%)
Query: 39 KEVQEVEQEGKHAIDSPGNPTNPDLAPEEY------ALEENEERSMLEPRAYDDPKLQEL 92
E + ++ + P +L EE E E E + + +
Sbjct: 814 SEEERLKALRIQREEMLMRPEELELINEEQKNLKQEIKLELSEIQEAEEEIQNINENKNE 873
Query: 93 IFVLIEWINDELADQRIIVKDLEEDLYDGQILQKLLEKLNQEKLD 137
+ + ++ II KD+ L K EK ++K
Sbjct: 874 FVEFKN--DPKKLNKLIIAKDVLIKLVISSDEIKQDEKTTKKKKK 916
>gnl|CDD|240271 PTZ00108, PTZ00108, DNA topoisomerase 2-like protein; Provisional.
Length = 1388
Score = 29.2 bits (66), Expect = 6.4
Identities = 26/95 (27%), Positives = 41/95 (43%), Gaps = 8/95 (8%)
Query: 94 FVLIEWINDELADQRIIVKDLEEDLYDGQILQ-KLLEKLNQEKLDVPEVTQSEEGQKQKL 152
F+ IN EL KDL ++L ++ K + K EK+ E +EE +
Sbjct: 1017 FIK-HVINGELVITNAKKKDLVKELKKLGYVRFKDIIKKKSEKITAEEEEGAEEDDEADD 1075
Query: 153 AIVLEAVNKA------LGLPRWSNTKWSVESIHSK 181
E + A L +P WS TK VE ++++
Sbjct: 1076 EDDEEELGAAVSYDYLLSMPIWSLTKEKVEKLNAE 1110
>gnl|CDD|214448 MTH00173, ATP6, ATP synthase F0 subunit 6; Provisional.
Length = 231
Score = 28.7 bits (65), Expect = 7.4
Identities = 23/74 (31%), Positives = 30/74 (40%), Gaps = 16/74 (21%)
Query: 188 HLLVSLALGLPRWS---------NTKWSVESIHSKN----LVPILHL--LVS-LVRHFRA 231
HL + +L LP W N S+ + L P L L VS L+R
Sbjct: 100 HLAFTFSLALPLWLSLILSGLFYNPSKSLAGLVPAGAPAGLNPFLVLIETVSILIRPLTL 159
Query: 232 PVRLPENVSVGVVV 245
VRL N+S G +V
Sbjct: 160 TVRLLANISAGHIV 173
>gnl|CDD|223769 COG0697, RhaT, Permeases of the drug/metabolite transporter (DMT)
superfamily [Carbohydrate transport and metabolism /
Amino acid transport and metabolism / General function
prediction only].
Length = 292
Score = 28.7 bits (64), Expect = 7.7
Identities = 8/56 (14%), Positives = 21/56 (37%)
Query: 455 KIKTMITSILNCLWVLIVAVAFMNSTAPVVRIPQKWMLPLSYFGYAPWSIGFTSWM 510
++ + ++L L + ++ + + I + L L Y G + + W
Sbjct: 178 RLGPVTLALLLQLLLALLLLLLFFLSGFGAPILSRAWLLLLYLGVFSTGLAYLLWY 233
>gnl|CDD|239653 cd03681, MM_CoA_mutase_MeaA, Coenzyme B12-dependent-methylmalonyl
coenzyme A (CoA) mutase (MCM) family, MeaA-like
subfamily; contains various methylmalonyl coenzyme A
(CoA) mutase (MCM)-like proteins similar to the
Streptomyces cinnamonensis MeaA, Methylobacterium
extorquens MeaA and Streptomyces collinus B12-dependent
mutase. Members of this subfamily contain an N-terminal
MCM domain and a C-terminal coenzyme B12 binding domain.
S. cinnamonensis MeaA is a putative B12-dependent mutase
which provides methylmalonyl-CoA precursors for the
biosynthesis of the monensin polyketide via an unknown
pathway. S. collinus B12-dependent mutase may be
involved in a pathway for acetate assimilation.
Length = 407
Score = 28.7 bits (64), Expect = 7.8
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 14/70 (20%)
Query: 227 RHFRAPVRL---------PENVSVGVVVVQLDVPEVTQSEEGQKQKLAIVLEAVNKALGL 277
R FR V++ PEN V + +++ VT S++ + + A+ L A N+ALGL
Sbjct: 246 RRFRYGVQVNSLGLTEQQPEN---NVWRILIEMLAVTLSKDARAR--AVQLPAWNEALGL 300
Query: 278 PRWSNTKWSV 287
PR + +WS+
Sbjct: 301 PRPWDQQWSL 310
>gnl|CDD|163267 TIGR03441, urea_trans_yut, urea transporter, Yersinia type.
Members of this protein family are bacterial urea
transporters, found not only is species that contain
urease, but adjacent to the urease operon. It was
characterized in Yersinia pseudotuberculosis. Members
are homologous to eukaryotic members of solute carrier
family 14, a family that includes urea transporters, and
to bacterial proteins in species with no detectable urea
degradation system [Transport and binding proteins,
Other].
Length = 292
Score = 28.4 bits (64), Expect = 8.2
Identities = 13/57 (22%), Positives = 23/57 (40%), Gaps = 7/57 (12%)
Query: 467 LWVLIV--AVAFMNSTAPVVRIPQKWMLPLSYFGYAPWSIGFTSWMTIKIYYTYMFL 521
LW +IV ++ A V I + W +P + T+W+ + Y + L
Sbjct: 88 LWAIIVIGSILSTVVMAAVSEILKPWKVPALTMPFV-----LTTWIFLLASYAFKGL 139
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 28.9 bits (65), Expect = 9.3
Identities = 30/152 (19%), Positives = 56/152 (36%), Gaps = 17/152 (11%)
Query: 18 KDDKDESFWDKIGTLGRKKRIKEVQEVEQEGKHAIDSPGNPTNPDLAPEEYALEENEE-- 75
+ S +I K +EV +E + N +EY +E +E
Sbjct: 785 EARLSHSRIPEIQAELSKLE-EEVSRIEA----RLREIEQKLNRLTLEKEYLEKEIQELQ 839
Query: 76 --RSMLEPRAYDDPKLQELIFVLIEWINDELADQRIIVKDLEEDLYD--GQI------LQ 125
R L+ + K E + E + +EL + ++DLE L D + L+
Sbjct: 840 EQRIDLKEQIKSIEKEIENLNGKKEELEEELEELEAALRDLESRLGDLKKERDELEAQLR 899
Query: 126 KLLEKLNQEKLDVPEVTQSEEGQKQKLAIVLE 157
+L K+ + + + + + K KL + E
Sbjct: 900 ELERKIEELEAQIEKKRKRLSELKAKLEALEE 931
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
0.318 0.134 0.396
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,153,468
Number of extensions: 2681676
Number of successful extensions: 2906
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2902
Number of HSP's successfully gapped: 49
Length of query: 526
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 425
Effective length of database: 6,457,848
Effective search space: 2744585400
Effective search space used: 2744585400
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.3 bits)