RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3836
(217 letters)
>gnl|CDD|215754 pfam00153, Mito_carr, Mitochondrial carrier protein.
Length = 96
Score = 93.5 bits (233), Expect = 6e-25
Identities = 28/89 (31%), Positives = 44/89 (49%), Gaps = 1/89 (1%)
Query: 15 YEHLLAGVTGGVTSTLILHPLDLLKIRFAVSDGRSPNPSYNNLSNAVHTIFRQEGFKGLY 74
LLAG G + + +PLD++K R S + Y + + I+++EG +GLY
Sbjct: 6 LASLLAGGIAGAIAATVTYPLDVVKTRLQ-SSAAGGSRKYKGILDCFKKIYKEEGIRGLY 64
Query: 75 KGVTPNIWGSGSAWGFYFLFYNTIKTWIQ 103
KG+ PN+ A YF Y T+K +
Sbjct: 65 KGLLPNLLRVAPAAAIYFGTYETLKKLLL 93
Score = 90.0 bits (224), Expect = 1e-23
Identities = 35/100 (35%), Positives = 53/100 (53%), Gaps = 5/100 (5%)
Query: 109 KPIGPTMNMVAAAEAGILTLVMTNPVWVVKTRLCLQYANDKVPTSKRYSGMIDALHKIYS 168
P+ +++A AG + +T P+ VVKTRL + S++Y G++D KIY
Sbjct: 1 SPLSFLASLLAGGIAGAIAATVTYPLDVVKTRL----QSSAAGGSRKYKGILDCFKKIYK 56
Query: 169 VEGIRGLYKGFVPGMFGVS-HGAVQFMVYEEMKSHYTQYY 207
EGIRGLYKG +P + V+ A+ F YE +K +
Sbjct: 57 EEGIRGLYKGLLPNLLRVAPAAAIYFGTYETLKKLLLKKL 96
>gnl|CDD|240302 PTZ00169, PTZ00169, ADP/ATP transporter on adenylate translocase;
Provisional.
Length = 300
Score = 67.5 bits (165), Expect = 2e-13
Identities = 48/183 (26%), Positives = 87/183 (47%), Gaps = 3/183 (1%)
Query: 18 LLAGVTGGVTSTLILHPLDLLKIRFAVSDGRSPNPSYNNLSNAVHTIFRQEGFKGLYKGV 77
+L+G G +S LI++PLD + R A G+ + + L + + I +Q GF LY+G
Sbjct: 117 ILSGGLAGASSLLIVYPLDFARTRLASDIGKGGDREFTGLFDCLMKISKQTGFLSLYQGF 176
Query: 78 TPNIWGSGSAWGFYFLFYNTIKTWIQQGNTTKPIGPTMNMVAAAEAGILTLVMTNPVWVV 137
++ G G YF Y++ K + + I A IL +++ P V
Sbjct: 177 GVSVQGIIVYRGAYFGLYDSAKALLFGNDKNTNI--LYKWAVAQTVTILAGLISYPFDTV 234
Query: 138 KTRLCLQYANDKVPTSKRYSGMIDALHKIYSVEGIRGLYKGFVPGMFGVSHGAVQFMVYE 197
+ R+ + + K + +Y+G +D KI EG+ G +KG + + GA+ + Y+
Sbjct: 235 RRRM-MMMSGRKAKSEIQYTGTLDCWKKILKNEGLGGFFKGAWANVLRGAGGALVLVFYD 293
Query: 198 EMK 200
E++
Sbjct: 294 ELQ 296
Score = 56.3 bits (136), Expect = 2e-09
Identities = 50/207 (24%), Positives = 92/207 (44%), Gaps = 22/207 (10%)
Query: 8 DLLKNIKYEHLLAGVTGGVTSTLILHPLDLLKIRFAVSDGRSPN------PSYNNLSNAV 61
D N + L+ G++ ++ T + P++ +K+ D P P Y+ + N
Sbjct: 2 DKKTNFATDFLMGGISAAISKT-AVAPIERVKMLIQTQDS-IPEIKSGKVPRYSGIVNCF 59
Query: 62 HTIFRQEGFKGLYKGVTPNIWGSGSAWGFYFLFYNTIKT----WIQQGNTTKPIGPTMNM 117
+ +++G L++G T N+ F F F + K + Q+ + K G +N+
Sbjct: 60 RRVSKEQGVLSLWRGNTANVIRYFPTQAFNFAFKDYFKNMFPKYNQKTDFWKFFG--VNI 117
Query: 118 VAAAEAGILTLVMTNPVWVVKTRLCLQYANDKVPTSKRYSGMIDALHKIYSVEGIRGLYK 177
++ AG +L++ P+ +TRL + ++G+ D L KI G LY+
Sbjct: 118 LSGGLAGASSLLIVYPLDFARTRLASDIGKGG---DREFTGLFDCLMKISKQTGFLSLYQ 174
Query: 178 GF---VPGMFGVSHGAVQFMVYEEMKS 201
GF V G+ V GA F +Y+ K+
Sbjct: 175 GFGVSVQGII-VYRGAY-FGLYDSAKA 199
>gnl|CDD|185494 PTZ00168, PTZ00168, mitochondrial carrier protein; Provisional.
Length = 259
Score = 35.3 bits (81), Expect = 0.017
Identities = 42/192 (21%), Positives = 75/192 (39%), Gaps = 38/192 (19%)
Query: 15 YEHLLAGVTGGVTSTLILHPLDLLKIRFAVSDGRSPNPSYNNLSNAVHTIFRQEGFKGLY 74
+ +L+ G GV +L+P+D +K N F K LY
Sbjct: 4 FHNLVTGALSGVIVDAVLYPIDSIKT----------NIQAKK-------SFSFSDIKKLY 46
Query: 75 KGVTPNIWGSGSAWGFYFLFYNTIKTWIQQGNTTKPIGPT-MNMVAAAEAGILTLVMTNP 133
G+ P + G+ A F++ FY K + + I T + +++ + A I ++ P
Sbjct: 47 SGILPTLVGTVPASAFFYCFYELSKKLLTEYREN--ISKTNLYLISTSIAEITACIVRLP 104
Query: 134 VWVVKTRLCLQYANDKVPTSKRYSGMIDALHKIYSVEGIRGL--YKG---FVPGMFGVSH 188
+VK + + SG I L IY + GL + G FV + +
Sbjct: 105 FEIVKQNM-------------QVSGNISVLKTIYEITQREGLPSFLGKSYFVMIVREIPF 151
Query: 189 GAVQFMVYEEMK 200
+Q+ ++E +K
Sbjct: 152 DCIQYFLWETLK 163
>gnl|CDD|173961 cd08551, Fe-ADH, iron-containing alcohol dehydrogenases
(Fe-ADH)-like. Large metal-containing alcohol
dehydrogenases (ADH), known as iron-containing alcohol
dehydrogenases. They contain a dehydroquinate
synthase-like protein structural fold and mostly
contain iron. They are distinct from other alcohol
dehydrogenases which contains different protein
domains. There are several distinct families of alcohol
dehydrogenases: Zinc-containing long-chain alcohol
dehydrogenases; insect-type, or short-chain alcohol
dehydrogenases; iron-containing alcohol dehydrogenases,
and others. The iron-containing family has a Rossmann
fold-like topology that resembles the fold of the
zinc-dependent alcohol dehydrogenases, but lacks
sequence homology, and differs in strand arrangement.
ADH catalyzes the reversible oxidation of alcohol to
acetaldehyde with the simultaneous reduction of NAD(P)+
to NAD(P)H.
Length = 370
Score = 31.5 bits (72), Expect = 0.34
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 4 PKAPDLLKNIKYEHLLAGVTGGVTSTLILHPL-DLLK---IRFAVSDGRSPNPSYNNLSN 59
K + +KN+ L G+ T +L + D LK I + DG PNP+ +N+
Sbjct: 12 EKLGEEIKNLGGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEVVIFDGVEPNPTLSNVDA 71
Query: 60 AVHTIFRQEGFKGL 73
AV +R+EG G+
Sbjct: 72 AV-AAYREEGCDGV 84
>gnl|CDD|143177 cd04976, Ig2_VEGFR, Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor (VEGFR).
Ig2_VEGFR: Second immunoglobulin (Ig)-like domain of
vascular endothelial growth factor receptor (VEGFR). The
VEGFRs have an extracellular component with seven
Ig-like domains, a transmembrane segment, and an
intracellular tyrosine kinase domain interrupted by a
kinase-insert domain. The VEGFR family consists of three
members, VEGFR-1 (Flt-1), VEGFR-2 (KDR/Flk-1) and
VEGFR-3 (Flt-4). VEGFRs bind VEGFs with high affinity at
the Ig-like domains. VEGF-A is important to the growth
and maintenance of vascular endothelial cells and to the
development of new blood- and lymphatic-vessels in
physiological and pathological states. VEGFR-2 is a
major mediator of the mitogenic, angiogenic and
microvascular permeability-enhancing effects of VEGF-A.
VEGFR-1 may play an inhibitory part in these processes
by binding VEGF and interfering with its interaction
with VEGFR-2. VEGFR-1 has a signaling role in mediating
monocyte chemotaxis. VEGFR-2 and -1 may mediate a
chemotactic and a survival signal in hematopoietic stem
cells or leukemia cells. VEGFR-3 has been shown to be
involved in tumor angiogenesis and growth.
Length = 71
Score = 27.8 bits (62), Expect = 1.2
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 118 VAAAEAGILTLVMTNPVWVVKTRLCLQ 144
V +AG T+V+TN ++ RL
Sbjct: 42 VTEEDAGNYTVVLTNKQAKLEKRLTFT 68
>gnl|CDD|233661 TIGR01971, NuoI, NADH-quinone oxidoreductase, chain I. This model
represents the I subunit (one of 14: A->N) of the
NADH-quinone oxidoreductase complex I which generally
couples NADH and ubiquinone oxidation/reduction in
bacteria and mammalian mitochondria, but may act on
NADPH and/or plastoquinone in cyanobacteria and plant
chloroplasts. This model excludes "I" subunits from the
closely related F420H2 dehydrogenase and formate
hydrogenlyase complexes [Energy metabolism, Electron
transport].
Length = 122
Score = 28.1 bits (63), Expect = 1.9
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 137 VKTRLCLQYANDKVPTSKRYSGMI 160
+ +QY +K+ R+ G I
Sbjct: 10 FSKPVTVQYPEEKLYLPPRFRGRI 33
>gnl|CDD|235136 PRK03598, PRK03598, putative efflux pump membrane fusion protein;
Provisional.
Length = 331
Score = 28.4 bits (64), Expect = 3.2
Identities = 9/20 (45%), Positives = 12/20 (60%), Gaps = 1/20 (5%)
Query: 117 MVAAAEAGILTLVMTNPVWV 136
M+ A + TL +T PVWV
Sbjct: 224 MLNAGST-VFTLSLTRPVWV 242
>gnl|CDD|182626 PRK10660, tilS, tRNA(Ile)-lysidine synthetase; Provisional.
Length = 436
Score = 28.0 bits (63), Expect = 3.8
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 15 YEHLLAGVTGGVTSTLILHPLDLLKIR 41
+L +GG+ ST++LH L +
Sbjct: 15 SRQILVAFSGGLDSTVLLHLLVQWRTE 41
>gnl|CDD|99815 cd06219, DHOD_e_trans_like1, FAD/NAD binding domain in the electron
transfer subunit of dihydroorotate dehydrogenase-like
proteins. Dihydroorotate dehydrogenases (DHODs) catalyze
the only redox reaction in pyrimidine de novo
biosynthesis. They catalyze the oxidation of
(S)-dihydroorotate to orotate coupled with the reduction
of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is
co-expressed with pyrK and both gene products are
required for full activity, as well as NAD binding.
NAD(P) binding domain of ferredoxin reductase-like
proteins catalyze electron transfer between an
NAD(P)-binding domain of the alpha/beta class and a
discrete (usually N-terminal) domain which vary in
orientation with respect to the NAD(P) binding domain.
The N-terminal domain may contain a flavin prosthetic
group, as in flavoenzymes, or use flavin as a substrate.
Ferredoxin is reduced in the final stage of photosystem
I. The flavoprotein Ferredoxin-NADP+ reductase transfers
electrons from reduced ferredoxin to FAD, forming FADH2
via a semiquinone intermediate, and then transfers a
hydride ion to convert NADP+ to NADPH.
Length = 248
Score = 27.5 bits (62), Expect = 4.4
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 4/37 (10%)
Query: 111 IGPTMNMVAAAEA----GILTLVMTNPVWVVKTRLCL 143
IGP + M A +E GI T+V NP+ V T +C
Sbjct: 186 IGPPIMMKAVSELTRPYGIPTVVSLNPIMVDGTGMCG 222
>gnl|CDD|153076 cd00716, creatine_kinase_like, Phosphagen (guanidino) kinases such
as creatine kinase and similar enzymes. Eukaryotic
creatine kinase-like phosphagen (guanidino) kinases are
enzymes that transphosphorylate a high energy
phosphoguanidino compound, like phosphocreatine (PCr) in
the case of creatine kinase (CK), which is used as an
energy-storage and -transport metabolite, to ADP,
thereby creating ATP. The substrate binding site is
located in the cleft between the N and C-terminal
domains, but most of the catalytic residues are found in
the larger C-terminal domain. In higher eukaryotes, CKs
are found as tissue-specific (muscle, brain), as well as
compartment-specific (mitochondrial, cytosolic, and
flagellar) isoforms. Mitochondrial and cytoplasmic CKs
are dimeric or octameric, while the flagellar isoforms
are trimers with three CD domains fused as a single
protein chain. CKs are either coupled to glycolysis
(cytosolic form) or oxidative phosphorylation
(mitochondrial form). Besides CK, one of the most
studied members of this family, this model also
represents other phosphagen kinases with different
substrate specificities, like glycocyamine kinase (GK),
lombricine kinase (LK), taurocyamine kinase (TK), and
echinoderm arginine kinase (AK).
Length = 357
Score = 27.7 bits (62), Expect = 5.3
Identities = 19/73 (26%), Positives = 26/73 (35%), Gaps = 16/73 (21%)
Query: 52 PSYNNLSNAVHTIFRQEGFKGLYKGVTPNIWGSGSAWGFYFLFYNTIKTWIQQG--NTTK 109
P + +N + + E + L VTPN G T+ IQ G N
Sbjct: 6 PDLSKHNNHMAKVLTPEMYAKLRDKVTPN--------GV------TLDKCIQTGVDNPGH 51
Query: 110 PIGPTMNMVAAAE 122
P T+ VA E
Sbjct: 52 PFIKTVGCVAGDE 64
>gnl|CDD|200463 cd11324, AmyAc_Amylosucrase, Alpha amylase catalytic domain found
in Amylosucrase. Amylosucrase is a glucosyltransferase
that catalyzes the transfer of a D-glucopyranosyl moiety
from sucrose onto an acceptor molecule. When the
acceptor is another saccharide, only alpha-1,4 linkages
are produced. Unlike most amylopolysaccharide synthases,
it does not require any alpha-D-glucosyl nucleoside
diphosphate substrate. In the presence of glycogen it
catalyzes the transfer of a D-glucose moiety onto a
glycogen branch, but in its absence, it hydrolyzes
sucrose and synthesizes polymers, smaller
maltosaccharides, and sucrose isoforms. The
Alpha-amylase family comprises the largest family of
glycoside hydrolases (GH), with the majority of enzymes
acting on starch, glycogen, and related oligo- and
polysaccharides. These proteins catalyze the
transformation of alpha-1,4 and alpha-1,6 glucosidic
linkages with retention of the anomeric center. The
protein is described as having 3 domains: A, B, C. A is
a (beta/alpha) 8-barrel; B is a loop between the beta 3
strand and alpha 3 helix of A; C is the C-terminal
extension characterized by a Greek key. The majority of
the enzymes have an active site cleft found between
domains A and B where a triad of catalytic residues
(Asp, Glu and Asp) performs catalysis. Other members of
this family have lost the catalytic activity as in the
case of the human 4F2hc, or only have 2 residues that
serve as the catalytic nucleophile and the acid/base,
such as Thermus A4 beta-galactosidase with 2 Glu
residues (GH42) and human alpha-galactosidase with 2 Asp
residues (GH31). The family members are quite extensive
and include: alpha amylase, maltosyltransferase,
cyclodextrin glycotransferase, maltogenic amylase,
neopullulanase, isoamylase, 1,4-alpha-D-glucan
maltotetrahydrolase, 4-alpha-glucotransferase,
oligo-1,6-glucosidase, amylosucrase, sucrose
phosphorylase, and amylomaltase.
Length = 536
Score = 27.5 bits (62), Expect = 5.5
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 12/54 (22%)
Query: 25 GVTSTLILHPLDLLKIR-------FAVSDGRSPNPSYNNLS--NAVHTIFRQEG 69
GVT LH + LLK +AVSD R +P + A+ R+ G
Sbjct: 99 GVT---YLHLMPLLKPPEGDNDGGYAVSDYREVDPRLGTMEDLRALAAELRERG 149
>gnl|CDD|178751 PLN03212, PLN03212, Transcription repressor MYB5; Provisional.
Length = 249
Score = 26.6 bits (58), Expect = 9.0
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 6/59 (10%)
Query: 24 GGVTST---LILHPLDLLKIRFAVSDGRSPNPSYNNLSNAVHTIFRQEGFKGLYKGVTP 79
GG+TS LIL LL R+++ GR P + N + N +T R+ K L +G+ P
Sbjct: 79 GGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRK---KLLRQGIDP 134
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 0.137 0.423
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,207,494
Number of extensions: 1028164
Number of successful extensions: 944
Number of sequences better than 10.0: 1
Number of HSP's gapped: 936
Number of HSP's successfully gapped: 30
Length of query: 217
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 124
Effective length of database: 6,812,680
Effective search space: 844772320
Effective search space used: 844772320
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: 57 (25.8 bits)