RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14198
(149 letters)
>gnl|CDD|233362 TIGR01340, aconitase_mito, aconitate hydratase, mitochondrial.
This model represents mitochondrial forms of the TCA
cycle enzyme aconitate hydratase, also known as
aconitase and citrate hydro-lyase [Energy metabolism,
TCA cycle].
Length = 745
Score = 131 bits (332), Expect = 2e-36
Identities = 57/86 (66%), Positives = 69/86 (80%), Gaps = 7/86 (8%)
Query: 46 YGKLEKTLQVIRKRLN-RPLTLSEKILYSHIDDPE----KQDIE--RGVSYLRLRPDRVA 98
Y KL L +R+RLN RPLTL+EKILYSH+DDPE QDI RG SYL+LRPDRVA
Sbjct: 1 YEKLYNNLDEVRRRLNSRPLTLAEKILYSHLDDPEESLLSQDIGDVRGKSYLKLRPDRVA 60
Query: 99 MQDATAQMAMLQFISSGLPRVAVPST 124
MQDA+AQMA+LQF++ GLP+VAVP++
Sbjct: 61 MQDASAQMALLQFMTCGLPQVAVPAS 86
>gnl|CDD|235974 PRK07229, PRK07229, aconitate hydratase; Validated.
Length = 646
Score = 92.9 bits (232), Expect = 8e-23
Identities = 27/63 (42%), Positives = 37/63 (58%), Gaps = 4/63 (6%)
Query: 62 RPLTLSEKILYSHIDDPEKQDIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPRVAV 121
LTL+EKILY+H+ + E +E G + +R D+ QDAT MA LQF + GL RV
Sbjct: 1 MGLTLTEKILYAHLVEGE---LEPGEE-IAIRIDQTLTQDATGTMAYLQFEAMGLDRVKT 56
Query: 122 PST 124
+
Sbjct: 57 ELS 59
>gnl|CDD|215861 pfam00330, Aconitase, Aconitase family (aconitate hydratase).
Length = 464
Score = 90.2 bits (224), Expect = 6e-22
Identities = 34/88 (38%), Positives = 43/88 (48%), Gaps = 7/88 (7%)
Query: 65 TLSEKILYSHIDDPEKQDIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPRVAVPST 124
TL EKIL +H+DDP + YL +RPDRV MQD T+ A L ++G P VP T
Sbjct: 1 TLYEKILDAHVDDPANERGTP---YLYIRPDRVLMQDVTSPQAFLGLRAAGRPVRRVPGT 57
Query: 125 N---DSIVPLPCRRKSSTLTLMTLRNKT 149
D +P L + RNK
Sbjct: 58 TITCDHNIPTQ-DGGEKDLNIAIERNKE 84
>gnl|CDD|153134 cd01584, AcnA_Mitochondrial, Aconitase catalyzes the reversible
isomerization of citrate and isocitrate as part of the
TCA cycle. Mitochondrial aconitase A catalytic domain.
Aconitase (also known as aconitate hydratase and citrate
hydro-lyase) catalyzes the reversible isomerization of
citrate and isocitrate as part of the TCA cycle.
Cis-aconitate is formed as an intermediary product
during the course of the reaction. In eukaryotes two
isozymes of aconitase are known to exist: one found in
the mitochondrial matrix and the other found in the
cytoplasm. This is the mitochondrial form. The
mitochondrial product is coded by a nuclear gene. Most
members of this subfamily are mitochondrial but there
are some bacterial members.
Length = 412
Score = 72.5 bits (178), Expect = 8e-16
Identities = 26/29 (89%), Positives = 29/29 (100%)
Query: 96 RVAMQDATAQMAMLQFISSGLPRVAVPST 124
RVAMQDATAQMA+LQF+SSGLP+VAVPST
Sbjct: 1 RVAMQDATAQMALLQFMSSGLPKVAVPST 29
>gnl|CDD|223977 COG1048, AcnA, Aconitase A [Energy production and conversion].
Length = 861
Score = 62.0 bits (151), Expect = 5e-12
Identities = 21/102 (20%), Positives = 30/102 (29%), Gaps = 17/102 (16%)
Query: 33 AVPMSKFDKDHLPYGKLEKTLQVIRKRLNRPLTLSEKILYSHIDDPE------KQDIERG 86
A Y L K + L S KIL ++ E + + R
Sbjct: 5 ARKTLTVGGKTYYYYDLPK---LEESGKISKLPYSLKILLENLLRGEDGTEEHIEALARW 61
Query: 87 V------SYLRLRPDRVAMQDATAQMAMLQFISSGLPRVAVP 122
+ + RP RV MQD T A + + V
Sbjct: 62 LPSGKPEKEIAFRPARVVMQDFTGVPA--VVDLAAMRDAMVE 101
>gnl|CDD|153135 cd01585, AcnA_Bact, Aconitase catalyzes the reversible
isomerization of citrate and isocitrate as part of the
TCA cycle. Bacterial Aconitase-like catalytic domain.
Aconitase (aconitate hydratase or citrate hydrolyase)
catalyzes the reversible isomerization of citrate and
isocitrate as part of the TCA cycle. Cis-aconitate is
formed as an intermediate product during the course of
the reaction. This distinct subfamily is found only in
bacteria and Archaea. Its exact characteristics are not
known.
Length = 380
Score = 38.6 bits (90), Expect = 5e-04
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 95 DRVAMQDATAQMAMLQFISSGLPRVAVP 122
D+ QDAT MA LQF + G+ RV
Sbjct: 1 DQTLTQDATGTMAYLQFEAMGVDRVRTE 28
>gnl|CDD|153129 cd01351, Aconitase, Aconitase catalytic domain; Aconitase catalyzes
the reversible isomerization of citrate and isocitrate
as part of the TCA cycle. Aconitase catalytic domain.
Aconitase (aconitate hydratase) catalyzes the reversible
isomerization of citrate and isocitrate as part of the
TCA cycle. Cis-aconitate is formed as an intermediate
product during the course of the reaction. In eukaryotes
two isozymes of aconitase are known to exist: one found
in the mitochondrial matrix and the other found in the
cytoplasm. Aconitase, in its active form, contains a
4Fe-4S iron-sulfur cluster; three cysteine residues
have been shown to be ligands of the 4Fe-4S cluster.
This is the Aconitase core domain, including structural
domains 1, 2 and 3, which binds the Fe-S cluster. The
aconitase family also contains the following proteins: -
Iron-responsive element binding protein (IRE-BP), a
cytosolic protein that binds to iron-responsive elements
(IREs). IREs are stem-loop structures found in the
5'UTR of ferritin, and delta aminolevulinic acid
synthase mRNAs, and in the 3'UTR of transferrin
receptor mRNA. IRE-BP also express aconitase activity. -
3-isopropylmalate dehydratase (isopropylmalate
isomerase), the enzyme that catalyzes the second step in
the biosynthesis of leucine. - Homoaconitase
(homoaconitate hydratase), an enzyme that participates
in the alpha-aminoadipate pathway of lysine
biosynthesis and that converts cis-homoaconitate into
homoisocitric acid.
Length = 389
Score = 37.9 bits (88), Expect = 0.001
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 5/41 (12%)
Query: 96 RVAMQDATAQMAMLQFISSGLP-RVAVPS----TNDSIVPL 131
RV +QDAT MAM F +VA PS +D V L
Sbjct: 1 RVMLQDATGPMAMKAFEILAALGKVADPSQIACVHDHAVQL 41
>gnl|CDD|234748 PRK00402, PRK00402, 3-isopropylmalate dehydratase large subunit;
Reviewed.
Length = 418
Score = 36.7 bits (86), Expect = 0.002
Identities = 19/62 (30%), Positives = 27/62 (43%), Gaps = 7/62 (11%)
Query: 63 PLTLSEKILYSHIDDPEKQ-DIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPRVAV 121
+TL+EKIL H DI + + D V D T +A+ +F G +V
Sbjct: 2 GMTLAEKILARHSGRDVSPGDI------VEAKVDLVMAHDITGPLAIKEFEKIGGDKVFD 55
Query: 122 PS 123
PS
Sbjct: 56 PS 57
>gnl|CDD|130409 TIGR01342, acon_putative, aconitate hydratase, putative, Aquifex
type. This model represents a small family of proteins
homologous (and likely functionally equivalent to)
aconitase 1. Members are found, so far in the anaerobe
Clostridium acetobutylicum, in the microaerophilic,
early-branching bacterium Aquifex aeolicus, and in the
halophilic archaeon Halobacterium sp. NRC-1. No member
is experimentally characterized [Energy metabolism, TCA
cycle].
Length = 658
Score = 32.3 bits (73), Expect = 0.071
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 65 TLSEKILYSHIDDPEKQDIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPRV 119
TL+EKI+ H+ + + + E + + D+ QDAT M L+F + + V
Sbjct: 1 TLAEKIIDDHLVEGDLEPGEE----IAIEIDQTLSQDATGTMCWLEFEALEMDEV 51
>gnl|CDD|191549 pfam06521, PAR1, PAR1 protein. This family consists of several
plant specific PAR1 proteins from Nicotiana tabacum and
Arabidopsis thaliana. The function of this family is
unknown.
Length = 158
Score = 30.3 bits (68), Expect = 0.25
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 94 PDRVAMQDATAQMAMLQFISSGL----PRVAVPSTNDSIVPLP 132
P Q A+ +M + SSG+ P V +N I P
Sbjct: 113 PKLCEAQGGNARRSMAEIRSSGIVAPGPESEVKPSNFMISPAM 155
>gnl|CDD|226258 COG3735, COG3735, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 299
Score = 28.9 bits (65), Expect = 1.0
Identities = 11/69 (15%), Positives = 23/69 (33%), Gaps = 3/69 (4%)
Query: 51 KTLQVIRKRLNRPLTLSEKILYSHIDDPEKQDIERGVSYLRLRPDRVAMQD---ATAQMA 107
K VI K+ + L + + +E + L + ++ + +A
Sbjct: 84 KNTAVILKQPMLTGFTDGENLEDRLSPEQLARLEMILQELGIPLQALSKMPPWQLASVLA 143
Query: 108 MLQFISSGL 116
Q +GL
Sbjct: 144 ATQCEKAGL 152
>gnl|CDD|184438 PRK13985, ureB, urease subunit beta; Provisional.
Length = 568
Score = 29.1 bits (65), Expect = 1.0
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 74 HIDDPEKQDIERGVSYLRLRPDRVAMQDATAQMAMLQFISS 114
H+D K+D++ S R+RP +A +D M + SS
Sbjct: 322 HLDKSIKEDVQFADS--RIRPQTIAAEDTLHDMGIFSITSS 360
>gnl|CDD|240531 cd13126, MATE_like_11, Uncharacterized subfamily of the multidrug
and toxic compound extrusion (MATE) proteins. This
family might function as a translocase for
lipopolysaccharides, such as O-antigen. The integral
membrane proteins from the MATE family are involved in
exporting metabolites across the cell membrane and are
responsible for multidrug resistance (MDR) in many
bacteria and animals. A number of family members are
involved in the synthesis of peptidoglycan components in
bacteria.
Length = 396
Score = 28.4 bits (64), Expect = 1.4
Identities = 12/38 (31%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 81 QDIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPR 118
QD RG + + RP R A D A+ Q + L
Sbjct: 118 QDAWRGAFFAQGRPGRAAANDLV--WAVAQLAGAMLIV 153
>gnl|CDD|223143 COG0065, LeuC, 3-isopropylmalate dehydratase large subunit [Amino
acid transport and metabolism].
Length = 423
Score = 28.3 bits (64), Expect = 1.4
Identities = 22/92 (23%), Positives = 34/92 (36%), Gaps = 14/92 (15%)
Query: 62 RPLTLSEKILYSHI--DDPEKQDIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPRV 119
TL EKIL +H+ ++ + + L D + D T+ A +G +V
Sbjct: 1 SAKTLYEKILDAHVGKEEVGAGET------VLLYIDLHLVHDVTSPQAFEGLREAGR-KV 53
Query: 120 AVPS----TNDSIVPLPCRRKSSTLTLMTLRN 147
P T D VP P K++ N
Sbjct: 54 RDPEKTVATFDHNVPTP-DIKAAEQQKELREN 84
>gnl|CDD|204335 pfam09905, DUF2132, Uncharacterized conserved protein (DUF2132).
This domain, found in various hypothetical prokaryotic
proteins, has no known function.
Length = 64
Score = 25.9 bits (58), Expect = 2.4
Identities = 9/29 (31%), Positives = 12/29 (41%), Gaps = 2/29 (6%)
Query: 1 MLAHLARVRQISWKKLCTAIQPRCFHRTP 29
+L L V W++L I CF P
Sbjct: 14 ILTEL--VEHYGWEELGERININCFKNNP 40
>gnl|CDD|233194 TIGR00930, 2a30, K-Cl cotransporter. [Transport and binding
proteins, Other].
Length = 953
Score = 27.8 bits (62), Expect = 2.6
Identities = 18/71 (25%), Positives = 28/71 (39%), Gaps = 10/71 (14%)
Query: 50 EKTLQVIRKRLNRPLTLSEKIL-YSHIDDPEKQDIERGVSYLRLRPDRVAMQDATAQMAM 108
+ LQ ++ R + L+E +L YS + + L L R MA
Sbjct: 877 DAELQSNVRKSYRQVRLNELLLEYSR---------DAALVVLSLPVPRKGSIPDELYMAW 927
Query: 109 LQFISSGLPRV 119
L+ +S LP V
Sbjct: 928 LEVLSEDLPPV 938
>gnl|CDD|181549 PRK08763, PRK08763, single-stranded DNA-binding protein;
Provisional.
Length = 164
Score = 27.2 bits (60), Expect = 2.8
Identities = 10/26 (38%), Positives = 12/26 (46%)
Query: 21 QPRCFHRTPQSYAVPMSKFDKDHLPY 46
PR PQ A PM F D +P+
Sbjct: 139 APRRQQPAPQQSAPPMDDFADDDIPF 164
>gnl|CDD|192013 pfam08356, EF_assoc_2, EF hand associated. This region
predominantly appears near EF-hands (pfam00036) in
GTP-binding proteins. It is found in all three
eukaryotic kingdoms.
Length = 89
Score = 26.0 bits (58), Expect = 3.4
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 47 GKLEKTLQVIRK-RLNRPLTLSEKILYSHIDDPEKQDIE 84
G+ E T ++RK L+L + L+ D P Q +E
Sbjct: 45 GRHETTWTILRKFGYTDSLSLRDDFLHPKFDVPPDQSVE 83
>gnl|CDD|182031 PRK09694, PRK09694, helicase Cas3; Provisional.
Length = 878
Score = 27.5 bits (61), Expect = 3.6
Identities = 12/40 (30%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 95 DRVAMQDATAQMAMLQFISSGLPRVAVPSTNDSIVPLPCR 134
A QD A+ +Q + + A S ND +P PC
Sbjct: 179 ASYAEQDKQAREEWIQALEALFLTPAGLSLND--IPPPCS 216
>gnl|CDD|237685 PRK14355, glmU, bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate
acetyltransferase; Provisional.
Length = 459
Score = 27.0 bits (60), Expect = 3.8
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 4/34 (11%)
Query: 54 QVIRKRLNRPLTLSEKILYSHIDDPEKQDIERGV 87
+V+R+R+NR L L+ L DPE I+RGV
Sbjct: 240 RVLRRRINRELMLAGVTLI----DPETTYIDRGV 269
>gnl|CDD|116500 pfam07888, CALCOCO1, Calcium binding and coiled-coil domain
(CALCOCO1) like. Proteins found in this family are
similar to the coiled-coil transcriptional coactivator
protein coexpressed by Mus musculus (CoCoA/CALCOCO1).
This protein binds to a highly conserved N-terminal
domain of p160 coactivators, such as GRIP1, and thus
enhances transcriptional activation by a number of
nuclear receptors. CALCOCO1 has a central coiled-coil
region with three leucine zipper motifs, which is
required for its interaction with GRIP1 and may regulate
the autonomous transcriptional activation activity of
the C-terminal region.
Length = 546
Score = 26.9 bits (59), Expect = 4.7
Identities = 21/67 (31%), Positives = 28/67 (41%)
Query: 79 EKQDIERGVSYLRLRPDRVAMQDATAQMAMLQFISSGLPRVAVPSTNDSIVPLPCRRKSS 138
EKQ++ + L LR D+ A + A + S L R A DSI P SS
Sbjct: 439 EKQELLDYIRVLELRLDKEADEKWAEDAATCEDAKSYLHRAAYIDLLDSIDESPLDESSS 498
Query: 139 TLTLMTL 145
L+ L
Sbjct: 499 ELSPSAL 505
>gnl|CDD|222785 PHA00368, PHA00368, internal virion protein D.
Length = 1315
Score = 26.7 bits (59), Expect = 7.0
Identities = 11/27 (40%), Positives = 16/27 (59%), Gaps = 6/27 (22%)
Query: 92 LRPDRVAMQD-----ATAQMAMLQFIS 113
LRP +V++QD A +M + QF S
Sbjct: 1083 LRPHKVSLQDSKAFGALVKMVL-QFKS 1108
>gnl|CDD|223507 COG0430, RCL1, RNA 3'-terminal phosphate cyclase [RNA processing
and modification].
Length = 341
Score = 26.1 bits (58), Expect = 7.4
Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 9/67 (13%)
Query: 43 HLPYGKLEKTLQVIRKRLNRPLTLSEKILYSHIDDPEKQDIERGVSYLRLRPDRVAMQDA 102
P G E L V + PL L+E + + RG+++ P VA + A
Sbjct: 157 FYPRGGGEVLLTVEPPKEKLPLHLTE---------RGEIEKVRGIAHSTNLPPHVAERQA 207
Query: 103 TAQMAML 109
A +L
Sbjct: 208 EAAKELL 214
>gnl|CDD|238569 cd01149, HutB, Hemin binding protein HutB. These proteins have
been shown to function as initial receptors in ABC
transport of hemin and hemoproteins in many eubacterial
species. They belong to the TroA superfamily of
periplasmic metal binding proteins that share a distinct
fold and ligand binding mechanism. A typical TroA
protein is comprised of two globular subdomains
connected by a single helix and can bind the metal ion
in the cleft between these domains.
Length = 235
Score = 25.7 bits (57), Expect = 9.3
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 90 LRLRPDRV-AMQDATAQMAMLQFISSGLPRVAVPSTND 126
L L+P V A +A A+ Q ++G+P V VPST
Sbjct: 55 LSLKPTLVIASDEAGPPEALDQLRAAGVPVVTVPSTPT 92
>gnl|CDD|167581 PRK03670, PRK03670, competence damage-inducible protein A;
Provisional.
Length = 252
Score = 25.9 bits (57), Expect = 9.3
Identities = 14/51 (27%), Positives = 21/51 (41%), Gaps = 12/51 (23%)
Query: 52 TLQVIRKRLNRPLTLSEKI----------LYSH--IDDPEKQDIERGVSYL 90
T+ + + L R L L E LY IDDP + + ++YL
Sbjct: 78 TMLAVAEALGRELVLCEDCLERIKEFYEELYKKGLIDDPTLNEARKKMAYL 128
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
0.322 0.134 0.394
Gapped
Lambda K H
0.267 0.0831 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,559,635
Number of extensions: 673223
Number of successful extensions: 618
Number of sequences better than 10.0: 1
Number of HSP's gapped: 611
Number of HSP's successfully gapped: 33
Length of query: 149
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 61
Effective length of database: 7,034,450
Effective search space: 429101450
Effective search space used: 429101450
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 (22.0 bits)
S2: 54 (24.4 bits)