RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14949
(102 letters)
>gnl|CDD|226005 COG3474, COG3474, Cytochrome c2 [Energy production and conversion].
Length = 135
Score = 147 bits (373), Expect = 2e-47
Identities = 53/102 (51%), Positives = 67/102 (65%), Gaps = 3/102 (2%)
Query: 2 SVENGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNK--GITW 59
G+K+F + C CH+ +GG NKVGP+L+GVVGR G GF Y+ A K GI W
Sbjct: 30 DAAAGEKVFKK-CQACHSIEKGGPNKVGPHLWGVVGRPAGSVEGFSYSAAMKKAGGGIVW 88
Query: 60 SASTLDIYLQNPKKYIPGTKMVFPGLRKEKDREDLIAYLSTL 101
LD +L PKKY+PGTKM F GL+K++DR DLIAYL +L
Sbjct: 89 DEDNLDEFLTAPKKYVPGTKMAFAGLKKDQDRADLIAYLKSL 130
>gnl|CDD|185414 PTZ00048, PTZ00048, cytochrome c; Provisional.
Length = 115
Score = 138 bits (350), Expect = 3e-44
Identities = 59/97 (60%), Positives = 69/97 (71%), Gaps = 1/97 (1%)
Query: 2 SVENGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWSA 61
+ G K+F CAQCHT N+GGA K GPNL G GR++G + F Y+DANKN GI WS
Sbjct: 14 DAKKGAKLFKAKCAQCHTINKGGAVKQGPNLHGFYGRKSG-SADFPYSDANKNSGIVWSD 72
Query: 62 STLDIYLQNPKKYIPGTKMVFPGLRKEKDREDLIAYL 98
L YL NPK YIPGTKMVF G++KEK+R DLIAYL
Sbjct: 73 KHLFEYLVNPKLYIPGTKMVFAGIKKEKERADLIAYL 109
>gnl|CDD|173596 PTZ00405, PTZ00405, cytochrome c; Provisional.
Length = 114
Score = 129 bits (326), Expect = 1e-40
Identities = 54/99 (54%), Positives = 74/99 (74%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWSAS 62
E G+K+F AQCHTA +GG+N VGPNLFG+V R++G GF Y+ AN + G+ W+
Sbjct: 14 AERGEKLFKGRAAQCHTATKGGSNGVGPNLFGIVNRKSGTVEGFAYSKANADSGVIWTPE 73
Query: 63 TLDIYLQNPKKYIPGTKMVFPGLRKEKDREDLIAYLSTL 101
LD+YL+NPKK++PGTKM F G++K ++R D+IAYL TL
Sbjct: 74 VLDVYLENPKKFMPGTKMSFAGIKKPQERADVIAYLETL 112
>gnl|CDD|215669 pfam00034, Cytochrom_C, Cytochrome c. The Pfam entry does not
include all Prosite members. The cytochrome 556 and
cytochrome c' families are not included. All these are
now in a new clan together. The C-terminus of DUF989,
pfam06181, has now been merged into this family.
Length = 81
Score = 47.9 bits (114), Expect = 9e-09
Identities = 23/97 (23%), Positives = 32/97 (32%), Gaps = 17/97 (17%)
Query: 5 NGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWSASTL 64
GKK+F CA CH A+ GA GP L G A + A
Sbjct: 1 KGKKLFAANCAACHGADGKGAGG-GPALAGAPAGYLLDALAAIKSGARGIGAQAV----- 54
Query: 65 DIYLQNPKKYIPGTKMVFPGLRKEKDREDLIAYLSTL 101
+ L +++R L AY+ +L
Sbjct: 55 ----------MSKAPGNATQL-TDEERAALAAYIRSL 80
>gnl|CDD|205620 pfam13442, Cytochrome_CBB3, Cytochrome C oxidase, cbb3-type,
subunit III.
Length = 67
Score = 41.2 bits (97), Expect = 3e-06
Identities = 22/96 (22%), Positives = 31/96 (32%), Gaps = 31/96 (32%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWSAS 62
G+ ++ CA CH G GP LF G +
Sbjct: 3 AAAGEALYDANCAACH-----GTGGAGPPLF----------------------GDALAPE 35
Query: 63 TLDIYLQNPKKYIPGTKMVFPGLRKEKDREDLIAYL 98
L + N K +P F G +++ E L AYL
Sbjct: 36 ALIKIVLNGKGAMPA----FGGDLSDEEIEALAAYL 67
>gnl|CDD|131652 TIGR02603, CxxCH_TIGR02603, putative heme-binding domain,
Pirellula/Verrucomicrobium type. This model represents
a domain limited to very few species but expanded into
large paralogous families in some species that conain
it. We find it in over 20 copies each in Pirellula sp.
strain 1 (phylum Planctomycetes) and Verrucomicrobium
spinosum DSM 4136 (phylum Verrucomicrobia), and no
matches above trusted cutoff an any other species so
far. This domain, about 140 amino acids long, contains
an absolutely conserved motif CxxCH, the cytochrome c
family heme-binding site signature (PS00190).
Length = 133
Score = 36.9 bits (86), Expect = 3e-04
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 2/38 (5%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQT 40
E GK ++ + C CH G + VGP+L G VG +
Sbjct: 3 AEKGKAVYAQRCYVCHRIGGEGVD-VGPDLTG-VGTKG 38
>gnl|CDD|132089 TIGR03045, PS_II_C550, cytochrome c-550. Members of this protein
family are cytochrome c-550, the PsbV extrinsic protein
of photosystem II, from both Cyanobacteria and
chloroplasts. A paralog to this protein, PsbV2, is
found in some species in addition to PsbV itself
[Energy metabolism, Photosynthesis].
Length = 159
Score = 36.5 bits (85), Expect = 5e-04
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNL 32
V+ GK++F AC CH GG K PN+
Sbjct: 51 VKRGKRLFNTACGTCHV---GGITKTNPNV 77
>gnl|CDD|184185 PRK13618, psbV, cytochrome c-550; Provisional.
Length = 163
Score = 36.8 bits (85), Expect = 5e-04
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 3/30 (10%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNL 32
V+ GK++F ACAQCH GG K N+
Sbjct: 52 VKEGKRLFNYACAQCHA---GGVTKTNQNV 78
>gnl|CDD|224921 COG2010, CccA, Cytochrome c, mono- and diheme variants [Energy
production and conversion].
Length = 150
Score = 36.5 bits (84), Expect = 5e-04
Identities = 26/108 (24%), Positives = 38/108 (35%), Gaps = 17/108 (15%)
Query: 3 VENGKKIFTRACAQCHTANEGGAN--KVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWS 60
G +F CA CH N GGA GP L G G P +T + +G W
Sbjct: 51 RGAGLALFLGNCAACHGPNLGGAGPLLDGPALAG------GDPPYIVWTILHGTRG-GWG 103
Query: 61 ASTL------DIYLQNPKKYIPGTKMVFPGLR-KEKDREDLIAYLSTL 101
D + Y+ + + ++D + AYL +L
Sbjct: 104 EMPAFADTLSDEQIAAVAAYV-MPDLPGMQAQLSDEDVAAIAAYLKSL 150
>gnl|CDD|177055 CHL00133, psbV, photosystem II cytochrome c550; Validated.
Length = 163
Score = 34.7 bits (80), Expect = 0.003
Identities = 12/30 (40%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNL 32
V+ GK++F +C CH GG K PN+
Sbjct: 52 VKRGKRLFNASCGACHV---GGITKTNPNV 78
>gnl|CDD|139707 PRK13620, psbV, cytochrome c-550; Provisional.
Length = 215
Score = 34.7 bits (79), Expect = 0.003
Identities = 32/105 (30%), Positives = 41/105 (39%), Gaps = 27/105 (25%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWSAS 62
V GK++F AC QCH GG K PN+ G D S
Sbjct: 104 VAEGKQLFAYACGQCHV---GGITKTDPNV------------GLDPEALALATPPRDSVE 148
Query: 63 TLDIYLQNPKKYI---------PGTKM--VFPGLRKEKDREDLIA 96
+L YL NP Y P TK +FP +R + +DL+A
Sbjct: 149 SLVDYLHNPTTYDGEREISELHPSTKSTDIFPKMRNLTE-DDLVA 192
>gnl|CDD|106567 PRK13622, psbV, cytochrome c-550; Provisional.
Length = 180
Score = 33.5 bits (76), Expect = 0.009
Identities = 31/95 (32%), Positives = 45/95 (47%), Gaps = 17/95 (17%)
Query: 6 GKKIFTRACAQCHTANEGGANKVGPNLFGVVGRQTGQAPGFD----YTDANKNKGITWSA 61
GKK+F RACAQCH GG P++ + G P D D KN +T+
Sbjct: 65 GKKLFNRACAQCHV---GGQTYPNPDVSLKLSDLEGATPPRDNVLAIVDYIKNP-VTYDG 120
Query: 62 STLDIYLQNPKKYIPGTKMV--FPGLRKEKDREDL 94
+++ +Y P T+++ +P LR D EDL
Sbjct: 121 ------VESLLEYHPNTQLLSEYPRLRNLTD-EDL 148
>gnl|CDD|177085 CHL00183, petJ, cytochrome c553; Provisional.
Length = 108
Score = 30.5 bits (69), Expect = 0.059
Identities = 12/28 (42%), Positives = 18/28 (64%), Gaps = 3/28 (10%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGP 30
++NG++IF+ CA CH GG N + P
Sbjct: 26 LDNGEQIFSANCAACHA---GGNNVIMP 50
>gnl|CDD|213762 TIGR03046, PS_II_psbV2, photosystem II cytochrome PsbV2. Members
of this protein family are PsbV2, a protein closely
related cytochrome c-550 (PsbV), a protein important to
the water-splitting and oxygen-evolving activity of
photosystem II. Mutant studies in Thermosynechococcus
elongatus showed PsbV2 can partially replace PsbV, from
which it appears to have arisen first by duplication,
then by intergenic recombination with a different gene
[Energy metabolism, Photosynthesis].
Length = 155
Score = 29.8 bits (67), Expect = 0.16
Identities = 11/27 (40%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 6 GKKIFTRACAQCHTANEGGANKVGPNL 32
GK +F C CH GGA PN+
Sbjct: 58 GKNLFESNCLNCHV---GGATLPNPNV 81
>gnl|CDD|225784 COG3245, CycB, Cytochrome c5 [Energy production and conversion].
Length = 126
Score = 29.4 bits (66), Expect = 0.17
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 6 GKKIFTRACAQCHTANEGGANKVG 29
GKK++ C CH A GA K G
Sbjct: 50 GKKVYGATCQACHAAGLPGAPKTG 73
>gnl|CDD|237450 PRK13621, psbV, cytochrome c-550; Provisional.
Length = 170
Score = 29.0 bits (65), Expect = 0.30
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 3/26 (11%)
Query: 6 GKKIFTRACAQCHTANEGGANKVGPN 31
GK++F C CH GGA PN
Sbjct: 69 GKQLFDSNCLNCHV---GGATLPNPN 91
>gnl|CDD|225797 COG3258, COG3258, Cytochrome c [Energy production and conversion].
Length = 293
Score = 29.0 bits (65), Expect = 0.36
Identities = 14/39 (35%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 4 ENGKKIFTRACAQCHTAN--------EGGANKVGPNLFG 34
GKK++ CA CH A+ E GA + P L+G
Sbjct: 163 VRGKKLYAEQCAACHGADGQGLKNDDEQGAGYLFPPLWG 201
>gnl|CDD|225418 COG2863, COG2863, Cytochrome c553 [Energy production and
conversion].
Length = 121
Score = 28.5 bits (64), Expect = 0.37
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 2/35 (5%)
Query: 1 MSVENGKKIFTRACAQCHTAN-EGGANKVGPNLFG 34
GK + ++CA CH A+ A P L G
Sbjct: 22 ADAALGKALAAQSCAACHGADGNSPAPGY-PKLAG 55
>gnl|CDD|184253 PRK13697, PRK13697, cytochrome c6; Provisional.
Length = 111
Score = 28.2 bits (63), Expect = 0.38
Identities = 11/26 (42%), Positives = 15/26 (57%), Gaps = 3/26 (11%)
Query: 5 NGKKIFTRACAQCHTANEGGANKVGP 30
NG+++F+ CA CH GG N V
Sbjct: 30 NGEQVFSANCASCHA---GGKNLVNA 52
>gnl|CDD|234237 TIGR03507, decahem_SO1788, decaheme c-type cytochrome, OmcA/MtrC
family. The protein SO_1778 (MtrC) of Shewanella
oneidensis MR-1, and its paralog SO_1779 (OmcA), with
which it intteracts, are large decaheme proteins, about
900 amino acids in length, involved in the use of
manganese [Mn(III/IV)] and iron [Fe(III)] as terminal
electron acceptors. This model represents these and
similar decaheme proteins, found also in Rhodoferax
ferrireducens DSM 15236, Aeromonas hydrophila ATCC7966,
and a few other bacterial species [Energy metabolism,
Electron transport].
Length = 659
Score = 29.0 bits (65), Expect = 0.41
Identities = 12/60 (20%), Positives = 19/60 (31%), Gaps = 7/60 (11%)
Query: 14 CAQCHTA-NEGGANKVGPNLFGVVGRQTGQAPGFDYTDANKNKGITWSASTLDIYLQNPK 72
CA CH A + A+ V G A + A T+ + + +P
Sbjct: 295 CAACHNAGSTASAHTVH------AGTLANLAAAYKVKAVVSAIAAAGKAPTVTVQVTDPA 348
>gnl|CDD|217389 pfam03150, CCP_MauG, Di-haem cytochrome c peroxidase. This is a
family of distinct cytochrome c peroxidases (CCPs) that
contain two haem groups. Similar to other cytochrome c
peroxidases, they reduce hydrogen peroxide to water
using c-type haem as an oxidisable substrate. However,
since they possess two, instead of one, haem prosthetic
groups, bacterial CCPs reduce hydrogen peroxide without
the need to generate semi-stable free radicals. The two
haem groups have significantly different redox
potentials. The high potential (+320 mV) haem feeds
electrons from electron shuttle proteins to the low
potential (-330 mV) haem, where peroxide is reduced
(indeed, the low potential site is known as the
peroxidatic site). The CCP protein itself is structured
into two domains, each containing one c-type haem
group, with a calcium-binding site at the domain
interface. This family also includes MauG proteins,
whose similarity to di-haem CCP was previously
recognised.
Length = 154
Score = 28.3 bits (64), Expect = 0.50
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 10/48 (20%)
Query: 3 VENGKKIF---------TRACAQCHTANEGGANKVGPNLFGVVGRQTG 41
E GKK+F T +CA CH + G + + ++ GV G++
Sbjct: 5 AELGKKLFFDPRLSGNGTISCASCHNPSLGFTDGLPVSI-GVDGQKGP 51
>gnl|CDD|129864 TIGR00782, ccoP, cytochrome c oxidase, cbb3-type, subunit III.
This model describes a di-heme subunit of approximately
26 kDa of the cbb3 type copper and heme-containing
cytochrome oxidase [Energy metabolism, Electron
transport].
Length = 285
Score = 28.3 bits (63), Expect = 0.52
Identities = 15/27 (55%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 6 GKKIFTRACAQCHTANEGGANKVGPNL 32
G IF CAQCH + GGA K PNL
Sbjct: 110 GAAIFRTWCAQCHGSGAGGA-KGFPNL 135
>gnl|CDD|172177 PRK13619, psbV, cytochrome c-550; Provisional.
Length = 160
Score = 28.3 bits (63), Expect = 0.60
Identities = 7/14 (50%), Positives = 11/14 (78%)
Query: 5 NGKKIFTRACAQCH 18
NG+++F + C QCH
Sbjct: 53 NGQRLFVQECTQCH 66
>gnl|CDD|217871 pfam04069, OpuAC, Substrate binding domain of ABC-type glycine
betaine transport system. Part of a high affinity
multicomponent binding-protein-dependent transport
system involved in bacterial osmoregulation. This domain
is often fused to the permease component of the
transporter complex. Family members are often integral
membrane proteins or predicted to be attached to the
membrane by a lipid anchor. Glycine betaine is involved
in protection from high osmolarity environments for
example in Bacillus subtilis. The family member OpuBC is
closely related, and involved in choline transport.
Choline is necessary for the biosynthesis of glycine
betaine. L-carnitine is important for osmoregulation in
Listeria monocytogenes. Family also contains proteins
binding l-proline (ProX), histidine (HisX) and taurine
(TauA).
Length = 256
Score = 27.3 bits (61), Expect = 1.3
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 58 TWSASTLDI-YLQNPKKYIPGTKMVFPGLRKE--KDREDLIAYLSTLH 102
W D+ L++PK P V P +RK + ++ A+L+ L
Sbjct: 179 DWMIKKYDLVVLEDPKGLFPPAYNVVPVVRKGFAEKHPEVAAFLNKLS 226
>gnl|CDD|216912 pfam02167, Cytochrom_C1, Cytochrome C1 family.
Length = 217
Score = 26.7 bits (60), Expect = 2.0
Identities = 7/21 (33%), Positives = 13/21 (61%)
Query: 1 MSVENGKKIFTRACAQCHTAN 21
S++ G +++T CA CH+
Sbjct: 13 ASLQRGAQVYTEVCAACHSLK 33
>gnl|CDD|106562 PRK13617, psbV, cytochrome c-550; Provisional.
Length = 170
Score = 26.4 bits (58), Expect = 2.3
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNL 32
++ G+K+F +C CH GG K N+
Sbjct: 59 IKAGRKVFNTSCGTCHA---GGITKTNQNV 85
>gnl|CDD|234378 TIGR03872, cytochrome_MoxG, cytochrome c(L), periplasmic. This
model describes a periplasmic c-type cytochrome that
serves as the primary electron acceptor for the
quinoprotein methanol dehydrogenase, a PQQ enzyme. The
member from Paracoccus denitrificans is also
characterized as an electron acceptor for methylamine
dehydrogenase, a tryptophan tryptophylquinone enzyme.
This protein is called cytochrome c(L) in
methylotrophic bacteria such Methylobacterium
extorquens, but c551i in Paracoccus denitrificans
[Energy metabolism, Electron transport].
Length = 133
Score = 26.2 bits (58), Expect = 2.6
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 3 VENGKKIFTRACAQCHTANEGGANKVGPNL 32
++ G+ +F AC+ CH G K+GP L
Sbjct: 44 LKKGESLFATACSGCHGHLAEG--KLGPGL 71
>gnl|CDD|184704 PRK14486, PRK14486, putative bifunctional cbb3-type cytochrome c
oxidase subunit II/cytochrome c; Provisional.
Length = 294
Score = 26.3 bits (58), Expect = 2.9
Identities = 9/28 (32%), Positives = 11/28 (39%)
Query: 6 GKKIFTRACAQCHTANEGGANKVGPNLF 33
GK ++ CA CH G V N
Sbjct: 218 GKALYDANCAACHGDEAQGQEGVALNDI 245
>gnl|CDD|224771 COG1858, MauG, Cytochrome c peroxidase [Inorganic ion transport and
metabolism].
Length = 364
Score = 26.2 bits (58), Expect = 3.1
Identities = 14/47 (29%), Positives = 18/47 (38%), Gaps = 10/47 (21%)
Query: 2 SVENGKKIF---------TRACAQCHTANEGGANKVGPNLFGVVGRQ 39
GKK+F T +CA CH GG + + P GV
Sbjct: 61 KAALGKKLFFDPRLSASGTISCATCHNLARGGVDGL-PTSIGVGWAP 106
>gnl|CDD|130808 TIGR01747, diampropi_NH3ly, diaminopropionate ammonia-lyase family.
This small subfamily includes diaminopropionate
ammonia-lyase from Salmonella typhimurium and a small
number of close homologs, about 50 % identical in
sequence. The enzyme is a pyridoxal phosphate-binding
homodimer homologous to threonine dehydratase (threonine
deaminase) [Energy metabolism, Other].
Length = 376
Score = 26.0 bits (57), Expect = 3.5
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 3/41 (7%)
Query: 36 VGRQTGQAPGFDYTDANKNKGITWSASTLDIYLQNPKKYIP 76
+G + GQA TD N +G+ W+A L Q Y+P
Sbjct: 88 IGEKMGQATFATATDGNHGRGVAWAAQQLG---QKAVVYMP 125
>gnl|CDD|222718 pfam14376, Haem_bd, Haem-binding domain. This domain contains a
potential haem-binding motif, CXXCH. This family is
found in association with pfam00034 and pfam03150.
Length = 135
Score = 25.7 bits (57), Expect = 3.6
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 7 KKIFTRACAQCHTAN 21
K I +C CH+ N
Sbjct: 35 KAILENSCYDCHSNN 49
>gnl|CDD|130875 TIGR01816, sdhA_forward, succinate dehydrogenase, flavoprotein
subunit, E. coli/mitochondrial subgroup. Succinate
dehydrogenase and fumarate reductase are homologous
enzymes reversible in principle but favored under
different circumstances. This model represents a
narrowly defined clade of the succinate dehydrogenase
flavoprotein subunit as found in mitochondria, in
Rickettsia, in E. coli and other Proteobacteria, and in
a few other lineages. However, This model excludes all
known fumarate reductases. It also excludes putative
succinate dehydrogenases that appear to diverged before
the split between E. coli succinate dehydrogenase and
fumarate reductase [Energy metabolism, TCA cycle].
Length = 565
Score = 26.3 bits (58), Expect = 3.7
Identities = 16/50 (32%), Positives = 18/50 (36%), Gaps = 8/50 (16%)
Query: 13 ACAQCHTANEGGANKVGPNLFGVVGRQTGQA------PGFDYTDANKNKG 56
AC H AN G N + V GR G + PG D N G
Sbjct: 363 ACVSVHGANRLGTNSLLD--LVVFGRAAGLSAAEYAKPGSDVKPMPPNAG 410
>gnl|CDD|204128 pfam09086, DUF1924, Domain of unknown function (DUF1924). This
domain is found in a set of bacterial proteins,
including Cytochrome c-type protein. It is functionally
uncharacterized.
Length = 98
Score = 25.4 bits (56), Expect = 4.2
Identities = 9/29 (31%), Positives = 13/29 (44%), Gaps = 9/29 (31%)
Query: 2 SVENGKKIF---------TRACAQCHTAN 21
S G+ +F R+CA CH A+
Sbjct: 10 SAARGQALFRTKSIGNGDERSCASCHGAD 38
>gnl|CDD|223492 COG0415, PhrB, Deoxyribodipyrimidine photolyase [DNA replication,
recombination, and repair].
Length = 461
Score = 25.7 bits (57), Expect = 5.0
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 47 DYTDANKNKGITWSASTLD 65
D A+ N G W+AST
Sbjct: 366 DGDPASNNGGWQWAASTGT 384
>gnl|CDD|223545 COG0469, PykF, Pyruvate kinase [Carbohydrate transport and
metabolism].
Length = 477
Score = 25.6 bits (57), Expect = 5.4
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 75 IPGTKMVFPGLRKEKDREDLI 95
+PG + P L EKD+EDL
Sbjct: 163 LPGVDLSLPAL-TEKDKEDLK 182
>gnl|CDD|234162 TIGR03299, LGT_TIGR03299, phage/plasmid-like protein TIGR03299.
Members of this uncharacterized protein family are
found in various Mycobacterium phage genomes, in
Streptomyces coelicolor plasmid SCP1, and in bacterial
genomes near various markers that suggest lateral gene
transfer. The function is unknown [Mobile and
extrachromosomal element functions, Other].
Length = 309
Score = 25.5 bits (56), Expect = 6.1
Identities = 12/57 (21%), Positives = 16/57 (28%), Gaps = 4/57 (7%)
Query: 43 APGFDYTDANKNKGITWSASTLDIYLQNPKKYIPGTKMVFPGLRKEKDREDLIAYLS 99
D + G W + + P G P +K R D A LS
Sbjct: 19 PGRQPIDDWARAAGFDWRIEEVPVLYVWP---GDGLIRPHPD-QKVLVRSDTGAPLS 71
>gnl|CDD|225413 COG2857, CYT1, Cytochrome c1 [Energy production and conversion].
Length = 250
Score = 25.1 bits (55), Expect = 7.2
Identities = 5/22 (22%), Positives = 12/22 (54%)
Query: 1 MSVENGKKIFTRACAQCHTANE 22
S++ G +++ C+ CH+
Sbjct: 41 GSLQRGAQLYKEYCSACHSLKL 62
>gnl|CDD|131764 TIGR02717, AcCoA-syn-alpha, acetyl coenzyme A synthetase (ADP
forming), alpha domain. Although technically
reversible, it is believed that this group of
ADP-dependent acetyl-CoA synthetases (ACS) act in the
direction of acetate and ATP production in the organisms
in which it has been characterized. In most species this
protein exists as a fused alpha-beta domain polypeptide.
In Pyrococcus and related species, however the domains
exist as separate polypeptides. This model represents
the alpha (N-terminal) domain. In Pyrococcus and related
species there appears to have been the development of a
paralogous family such that four other proteins are
close relatives. In reference , one of these (along with
its beta-domain partner) was characterized as ACS-II
showing specificity for phenylacetyl-CoA. This model has
been constructed to exclude these non-ACS-I paralogs.
This may result in new, authentic ACS-I sequences
falling below the trusted cutoff.
Length = 447
Score = 25.3 bits (56), Expect = 7.4
Identities = 9/35 (25%), Positives = 13/35 (37%)
Query: 19 TANEGGANKVGPNLFGVVGRQTGQAPGFDYTDANK 53
A + G +GPN G++ F T K
Sbjct: 116 IARKYGMRLLGPNCLGIINTHIKLNATFAPTMPKK 150
>gnl|CDD|238642 cd01317, DHOase_IIa, Dihydroorotase (DHOase), subgroup IIa; DHOases
catalyze the reversible interconversion of carbamoyl
aspartate to dihydroorotate, a key reaction in
pyrimidine biosynthesis. This subgroup also contains
proteins that lack the active site, like unc-33, a
C.elegans protein involved in axon growth.
Length = 374
Score = 24.9 bits (55), Expect = 9.1
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 81 VFPGLRKEKDREDLIAYLST 100
V P LR E+DRE LI L
Sbjct: 237 VNPPLRSEEDREALIEALKD 256
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
0.316 0.134 0.407
Gapped
Lambda K H
0.267 0.0758 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,055,147
Number of extensions: 400515
Number of successful extensions: 372
Number of sequences better than 10.0: 1
Number of HSP's gapped: 368
Number of HSP's successfully gapped: 44
Length of query: 102
Length of database: 10,937,602
Length adjustment: 68
Effective length of query: 34
Effective length of database: 7,921,530
Effective search space: 269332020
Effective search space used: 269332020
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 (21.6 bits)
S2: 53 (24.1 bits)