RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6340
(158 letters)
>gnl|CDD|223092 COG0013, AlaS, Alanyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 879
Score = 92.3 bits (230), Expect = 2e-22
Identities = 52/169 (30%), Positives = 84/169 (49%), Gaps = 18/169 (10%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKY 60
R MR HT +HLL+AALR+VL +Q V ++ DFS + + L+ + + +E+
Sbjct: 560 RRRLMRNHTATHLLHAALRKVLGDHVWQAGSLVDPEKLRFDFS-HYKALTAEELKEIERL 618
Query: 61 INDVIADQVQVDRRHM----------RA--SEIYPDDVILIDISDKENVISREPCCGTHV 108
+N++I + + V M A E Y D+V +++I D S E C GTHV
Sbjct: 619 VNEIIRENLPVKTEEMDLDEAKAKGAMALFGEKYGDEVRVVEIGD----FSVELCGGTHV 674
Query: 109 FNTGHIESCTVIGYKSYNHGVRSIKCLTGESSKAAVENGKQLSAAVKQT 157
NTG I +I + GVR I+ +TGE++ ++ + L +
Sbjct: 675 SNTGDIGLFKIISEEGIAAGVRRIEAVTGEAALEYLQEQEDLLKEIASL 723
>gnl|CDD|215487 PLN02900, PLN02900, alanyl-tRNA synthetase.
Length = 936
Score = 82.4 bits (204), Expect = 5e-19
Identities = 50/165 (30%), Positives = 82/165 (49%), Gaps = 22/165 (13%)
Query: 9 HTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKYINDVIAD 67
HT +HLLN+AL+ VL QK V ++ DFS +G+ ++ + + VE +N+ I D
Sbjct: 598 HTATHLLNSALKEVLGDHVDQKGSLVAFEKLRFDFS-HGKPMTPEELREVESLVNEWIGD 656
Query: 68 QVQVDRRHM-----------RA--SEIYPDDVILIDISDKENVISREPCCGTHVFNTGHI 114
+ V+ + M RA E YPD V ++ + S E C GTHV NT
Sbjct: 657 ALPVEAKEMPLADAKRINGLRAVFGEKYPDPVRVVSVGGV---YSMELCGGTHVSNTAEA 713
Query: 115 ESCTVIGYKSYNHGVRSIKCLTGESSKAAVENG----KQLSAAVK 155
E+ ++ + G+R I +TG ++ A+ ++L +A+K
Sbjct: 714 EAFKLLSEEGIAKGIRRITAVTGGAAVEAINAADSLERELDSALK 758
>gnl|CDD|234701 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 81.7 bits (203), Expect = 8e-19
Identities = 55/173 (31%), Positives = 80/173 (46%), Gaps = 27/173 (15%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL----TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAV 57
R R H+ +HLL+AALR VL T Q V D DFS + E L+ + + +
Sbjct: 546 RRAIARNHSATHLLHAALREVLGEHVT---QAGSLVAPDRLRFDFS-HFEALTPEELRKI 601
Query: 58 EKYINDVIADQVQVDRRHM-----RAS-------EIYPDDVILIDISDKENVISREPCCG 105
E +N+ I + + V+ M + E Y D+V ++ I D S E C G
Sbjct: 602 EDLVNEKIRENLPVETEEMSIEEAKKMGAMALFGEKYGDEVRVVSIGD----FSIELCGG 657
Query: 106 THVFNTGHIESCTVIGYKSYNHGVRSIKCLTGESSKAAVENGKQLSAAVKQTK 158
THV NTG I ++ GVR I+ +TGE AA+E + A +K+
Sbjct: 658 THVSNTGDIGLFKIVSESGVAAGVRRIEAVTGE---AALEYLNEQEALLKELA 707
>gnl|CDD|232931 TIGR00344, alaS, alanine--tRNA ligase. The model describes
alanine--tRNA ligase. This enzyme catalyzes the reaction
(tRNAala + L-alanine + ATP = L-alanyl-tRNAala +
pyrophosphate + AMP) [Protein synthesis, tRNA
aminoacylation].
Length = 851
Score = 79.4 bits (196), Expect = 6e-18
Identities = 45/159 (28%), Positives = 72/159 (45%), Gaps = 18/159 (11%)
Query: 1 MRLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEK 59
RL MR H+ +HLL+AAL++VL +Q V + DFS Y L+ + + +E
Sbjct: 552 RRLRIMRNHSATHLLHAALQKVLGNHVWQAGSLVSVKKLRFDFSHY-RALTREELEKIED 610
Query: 60 YINDVIADQVQVDRRHM-RA-----------SEIYPDDVILIDISDKENVISREPCCGTH 107
+N+ I + + M E Y + V ++ + D +S E C GTH
Sbjct: 611 LVNEQILANIPIKVIFMDLDEAKAKGAFALFGEKYGEKVRVVSVGD----VSVELCGGTH 666
Query: 108 VFNTGHIESCTVIGYKSYNHGVRSIKCLTGESSKAAVEN 146
V NTG I ++ GVR I+ +TG ++ +
Sbjct: 667 VRNTGEIGLFKIVKESGIAAGVRRIEAVTGNAAIEYLNE 705
>gnl|CDD|237551 PRK13902, alaS, alanyl-tRNA synthetase; Provisional.
Length = 900
Score = 60.3 bits (147), Expect = 2e-11
Identities = 38/128 (29%), Positives = 62/128 (48%), Gaps = 20/128 (15%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKY 60
R MR HT +H++ AA R+VL +Q + D+ LD + Y + ++ + V +E+
Sbjct: 586 RYRLMRHHTATHIILAAARKVLGDHVWQAGAQKTVDKARLDITHY-KRITREEVKEIERL 644
Query: 61 INDVIADQVQVDRRHMRASE--------IY-----PDDVI-LIDISDKENVISREPCCGT 106
N+++ + V M +E +Y P I +++I D +V E C GT
Sbjct: 645 ANEIVMENRPVKVEWMDRNEAEQKYGFRLYQGGVPPGKTIRVVEIGDW-DV---EACGGT 700
Query: 107 HVFNTGHI 114
HV NTG I
Sbjct: 701 HVSNTGEI 708
>gnl|CDD|234962 PRK01584, PRK01584, alanyl-tRNA synthetase; Provisional.
Length = 594
Score = 59.0 bits (143), Expect = 6e-11
Identities = 42/140 (30%), Positives = 65/140 (46%), Gaps = 18/140 (12%)
Query: 7 RAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKYINDVI 65
+ HT +HLL+ ALR VL QK + ++ DFS + E ++ D + VE +N I
Sbjct: 455 KLHTATHLLHKALRLVLGDHVRQKGSNITAERLRFDFS-HPEKMTDDEIKKVEDIVNLQI 513
Query: 66 ADQVQVDRRHMRASEI------------YPDDVILIDISDKENVISREPCCGTHVFNTGH 113
+ + V + M E Y D V + +I S+E C G HV NTG
Sbjct: 514 KNDLSVKKEVMSLEEAREKGAMALFGEKYEDIVKVYEIDG----FSKEVCGGPHVENTGE 569
Query: 114 IESCTVIGYKSYNHGVRSIK 133
+ + + +S + GVR I+
Sbjct: 570 LGTFKIQKEQSSSSGVRRIR 589
>gnl|CDD|225427 COG2872, COG2872, Predicted metal-dependent hydrolases related to
alanyl-tRNA synthetase HxxxH domain [General function
prediction only].
Length = 241
Score = 55.5 bits (134), Expect = 6e-10
Identities = 37/150 (24%), Positives = 59/150 (39%), Gaps = 18/150 (12%)
Query: 6 MRAHTTSHLLNAALRRVLTCTYQKSCRVFSDECALDFSVYGETLSVDSV----AAVEKYI 61
MR HT HLL+A L +V + D +DF ++ V + K
Sbjct: 96 MRMHTALHLLSAVLYKVYG-ALTTGFEIGEDYARIDFDGEDTEDEIEEVEALANELVKEN 154
Query: 62 NDVIADQVQVDRRHMR------ASEIYPD---DVILIDISDKENVISREPCCGTHVFNTG 112
VI + + +++ PD + +++I D I +PC GTHV NTG
Sbjct: 155 LPVIIYFIPREEAEKLPGLVKLKNKVPPDVEGKIRIVEIGD----IDVQPCGGTHVKNTG 210
Query: 113 HIESCTVIGYKSYNHGVRSIKCLTGESSKA 142
I ++ + G R + GE + A
Sbjct: 211 EIGEIKILKTEKKGKGNRRVYFTLGERASA 240
>gnl|CDD|234309 TIGR03683, A-tRNA_syn_arch, alanyl-tRNA synthetase. This family of
alanyl-tRNA synthetases is limited to the archaea, and
is a subset of those sequences identified by the model
pfam07973 covering the second additional domain (SAD) of
alanyl and threonyl tRNA synthetases.
Length = 902
Score = 55.8 bits (135), Expect = 9e-10
Identities = 43/159 (27%), Positives = 73/159 (45%), Gaps = 20/159 (12%)
Query: 2 RLGCMRAHTTSHLLNAALRRVL-TCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKY 60
RL MR HT +H+L AA RRVL +Q + +D+ LD + Y + +S + + +E+
Sbjct: 590 RLRLMRHHTATHVLLAAARRVLGRHVWQAGAQKDTDKARLDITHY-KRISEEEIKEIERL 648
Query: 61 INDVIADQVQVDRRHM---RASEIY----------PDDVI-LIDISDKENVISREPCCGT 106
N ++ + V + M A + Y P I +++I D + C GT
Sbjct: 649 ANRIVMENRPVSVKWMDRNEAEQKYGFRLYQGGVPPGREIRVVEIED----WDVQACGGT 704
Query: 107 HVFNTGHIESCTVIGYKSYNHGVRSIKCLTGESSKAAVE 145
H NTG I ++ + GV I+ GE++ ++
Sbjct: 705 HCRNTGEIGPIKILKTERIQDGVERIEFAAGEAALEYIQ 743
>gnl|CDD|219676 pfam07973, tRNA_SAD, Threonyl and Alanyl tRNA synthetase second
additional domain. The catalytically active from of
threonyl/alanyl tRNA synthetase is a dimer. Within the
tRNA synthetase class II dimer, the bound tRNA interacts
with both monomers making specific interactions with the
catalytic domain, the C-terminal domain, and this domain
(the second additional domain). The second additional
domain is comprised of a pair of perpendicularly
orientated antiparallel beta sheets, of four and three
strands, respectively, that surround a central alpha
helix that forms the core of the domain.
Length = 44
Score = 39.4 bits (93), Expect = 2e-05
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 98 ISREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSI 132
+ C GTHV NTG I + ++ S N G++ I
Sbjct: 9 FDVDLCGGTHVPNTGEIGAFKILKGDSKNKGLQRI 43
>gnl|CDD|197931 smart00863, tRNA_SAD, Threonyl and Alanyl tRNA synthetase second
additional domain. The catalytically active form of
threonyl/alanyl tRNA synthetase is a dimer. Within the
tRNA synthetase class II dimer, the bound tRNA interacts
with both monomers making specific interactions with the
catalytic domain, the C-terminal domain, and this SAD
domain (the second additional domain). The second
additional domain is comprised of a pair of
perpendicularly orientated antiparallel beta sheets, of
four and three strands, respectively, that surround a
central alpha helix that forms the core of the domain.
Length = 43
Score = 36.2 bits (85), Expect = 4e-04
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 98 ISREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSI 132
S E C GTHV NTG I + ++ G++ I
Sbjct: 9 FSVELCGGTHVPNTGEIGAFKILSVSGAYWGLQRI 43
>gnl|CDD|183530 PRK12444, PRK12444, threonyl-tRNA synthetase; Reviewed.
Length = 639
Score = 31.3 bits (71), Expect = 0.18
Identities = 21/123 (17%), Positives = 58/123 (47%), Gaps = 16/123 (13%)
Query: 9 HTTSHLLNAALRRVLTCTYQKSCRVFSDECALDFSVYGETLSVDSVAAVEKYINDVIADQ 68
H+ +H+L A++R+ V + D + +++V+ + +EK + +I +
Sbjct: 77 HSAAHILAQAVKRLYGDVNLGVGPVIENGFYYDMDL-PSSVNVEDLRKIEKEMKKIINEN 135
Query: 69 VQVDRRHM---RASEIYPDDV------ILIDISDKENVISREP------CCGTHVFNTGH 113
++++R + A++++ + +L I E++ + C G H+ +TG+
Sbjct: 136 IKIERVEVSREEAAKLFQEMNDRLKLELLEAIPSGESITLYKQGEFVDLCRGPHLPSTGY 195
Query: 114 IES 116
+++
Sbjct: 196 LKA 198
>gnl|CDD|176645 cd05282, ETR_like, 2-enoyl thioester reductase-like. 2-enoyl
thioester reductase (ETR) catalyzes the NADPH-dependent
conversion of trans-2-enoyl acyl carrier
protein/coenzyme A (ACP/CoA) to acyl-(ACP/CoA) in fatty
acid synthesis. 2-enoyl thioester reductase activity
has been linked in Candida tropicalis as essential in
maintaining mitiochondrial respiratory function. This
ETR family is a part of the medium chain
dehydrogenase/reductase family, but lack the zinc
coordination sites characteristic of the alcohol
dehydrogenases in this family. NAD(P)(H)-dependent
oxidoreductases are the major enzymes in the
interconversion of alcohols and aldehydes, or ketones.
Alcohol dehydrogenase in the liver converts ethanol and
NAD+ to acetaldehyde and NADH, while in yeast and some
other microorganisms ADH catalyzes the conversion
acetaldehyde to ethanol in alcoholic fermentation.
ADH is a member of the medium chain alcohol
dehydrogenase family (MDR), which has a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is
comprised of 2 structurally similar halves, each of
which contacts a mononucleotide. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a
catalytic zinc at the active site and a structural zinc
in a lobe of the catalytic domain. NAD(H) binding
occurs in the cleft between the catalytic and
coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding. Candida tropicalis
enoyl thioester reductase (Etr1p) catalyzes the
NADPH-dependent reduction of trans-2-enoyl thioesters
in mitochondrial fatty acid synthesis. Etr1p forms
homodimers with each subunit containing a
nucleotide-binding Rossmann fold domain and a catalytic
domain.
Length = 323
Score = 30.3 bits (69), Expect = 0.40
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 42 FSVYGETLSVDSVAAVEKYINDVIADQVQVDRRHMRASEIYPDDVILI 89
++ +GE L + V I +V V M A+ I P D+I I
Sbjct: 3 YTQFGEPLP-LVLELVSLPIPPPGPGEVLV---RMLAAPINPSDLITI 46
>gnl|CDD|164862 PHA01631, PHA01631, hypothetical protein.
Length = 176
Score = 29.1 bits (65), Expect = 0.72
Identities = 18/69 (26%), Positives = 27/69 (39%), Gaps = 12/69 (17%)
Query: 36 DECALDFSVYGETLSVDSVAAVEKYINDVIADQVQVDRRHMR-----------ASEIYPD 84
DE D+ V +T + + + KY +I + R +R A I D
Sbjct: 14 DELDFDYVVVDKTFNDMTECQIPKYQEKIIWIMTNTEIRWLRIAKQLLTIVNFAKNI-ED 72
Query: 85 DVILIDISD 93
D+I I SD
Sbjct: 73 DIIAIIDSD 81
>gnl|CDD|214361 CHL00095, clpC, Clp protease ATP binding subunit.
Length = 821
Score = 27.7 bits (62), Expect = 2.7
Identities = 11/44 (25%), Positives = 26/44 (59%), Gaps = 7/44 (15%)
Query: 56 AVEKYINDVIADQVQVDRRHMRASEIYPDDVILIDISDKENVIS 99
A+ + + D +A++V + +I P D+I++D++D++ V
Sbjct: 773 AIMRLLEDPLAEEVL-------SFKIKPGDIIIVDVNDEKEVKI 809
>gnl|CDD|216632 pfam01657, Stress-antifung, Salt stress response/antifungal. This
domain is often found in association with the kinase
domains pfam00069 or pfam07714. In many proteins it is
duplicated. It contains six conserved cysteines which
are involved in disulphide bridges. It has a role in
salt stress response and has antifungal activity.
Length = 106
Score = 26.6 bits (59), Expect = 2.8
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 15 LNAALRRVLT-CTYQKSCRVFSDECALDFSVY 45
L A+ + C +K R++ D C L + Y
Sbjct: 73 LATAVSELRRCCPNKKGGRIWYDSCFLRYESY 104
>gnl|CDD|223518 COG0441, ThrS, Threonyl-tRNA synthetase [Translation, ribosomal
structure and biogenesis].
Length = 589
Score = 27.6 bits (62), Expect = 3.6
Identities = 25/120 (20%), Positives = 51/120 (42%), Gaps = 18/120 (15%)
Query: 9 HTTSHLLNAALRRVLTCTYQKSCR--VFSDECALDFSVYGETLSVDSVAAVEKYINDVIA 66
H+ +H+L A++R+ Y V + DF V E ++ + + +EK + ++
Sbjct: 31 HSCAHVLAQAVKRL----YPDVTIGPVIEEGFYYDFDV-KEPITPEDLLKIEKEMKEIAK 85
Query: 67 DQVQVDRRHM---RASEIYPDDVILIDISDKENVISR-------EPCCGTHVFNTGHIES 116
+ + ++R + A + + I K + +S + C G HV +TG I
Sbjct: 86 ENLPIEREVVSREEARAPFGPYKAEL-IDCKGHPLSEYSQGEFVDLCRGPHVPSTGKIAF 144
>gnl|CDD|235208 PRK04036, PRK04036, DNA polymerase II small subunit; Validated.
Length = 504
Score = 27.2 bits (61), Expect = 3.8
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 8/36 (22%)
Query: 97 VISREPCCGTHVFNTGHIESCTVIGYKSYNHGVRSI 132
VI P +F+TGH+ + GY Y GV I
Sbjct: 436 VIDEVP----DIFHTGHVH---INGYGKY-RGVLLI 463
>gnl|CDD|217611 pfam03552, Cellulose_synt, Cellulose synthase. Cellulose, an
aggregate of unbranched polymers of beta-1,4-linked
glucose residues, is the major component of wood and
thus paper, and is synthesised by plants, most algae,
some bacteria and fungi, and even some animals. The
genes that synthesise cellulose in higher plants differ
greatly from the well-characterized genes found in
Acetobacter and Agrobacterium sp. More correctly
designated as 'cellulose synthase catalytic subunits',
plant cellulose synthase (CesA) proteins are integral
membrane proteins, approximately 1,000 amino acids in
length. There are a number of highly conserved residues,
including several motifs shown to be necessary for
processive glycosyltransferase activity.
Length = 716
Score = 26.6 bits (59), Expect = 6.5
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 119 VIGYKSYNHGVRSIKCLT 136
+ G+K + G RSI C+
Sbjct: 423 LTGFKMHCRGWRSIYCMP 440
>gnl|CDD|132578 TIGR03539, DapC_actino, succinyldiaminopimelate transaminase. This
family of actinobacterial succinyldiaminopimelate
transaminase enzymes (DapC) are members of the pfam00155
superfamily. Many of these genes appear adjacent to
other genes encoding enzymes of the lysine biosynthesis
via diaminopimelate pathway (GenProp0125).
Length = 357
Score = 26.6 bits (59), Expect = 6.9
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 19 LRRVLTCTYQKSCRVFSDECALDFSVYGETLSV 51
LR ++ ++ V SDEC L+ G +S+
Sbjct: 164 LRAIVAWARERGAVVASDECYLELGWEGRPVSI 196
>gnl|CDD|179456 PRK02649, ppnK, inorganic polyphosphate/ATP-NAD kinase;
Provisional.
Length = 305
Score = 26.5 bits (59), Expect = 7.0
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 8/53 (15%)
Query: 58 EKYIND-------VIADQVQVDRRHMRASEIYPDDVILID-ISDKENVISREP 102
E Y+N V+A Q ++ R M + D + + +S E V+ REP
Sbjct: 108 EAYLNQLDEAIDQVLAGQYTIEERTMLTVSVMRGDQLRWEALSLNEMVLHREP 160
>gnl|CDD|215138 PLN02248, PLN02248, cellulose synthase-like protein.
Length = 1135
Score = 26.5 bits (59), Expect = 8.9
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 119 VIGYKSYNHGVRSIKCLT 136
V GY+ +N G RS+ C+T
Sbjct: 840 VTGYRMHNRGWRSVYCVT 857
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 0.132 0.385
Gapped
Lambda K H
0.267 0.0906 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,540,330
Number of extensions: 664216
Number of successful extensions: 549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 534
Number of HSP's successfully gapped: 26
Length of query: 158
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 69
Effective length of database: 6,990,096
Effective search space: 482316624
Effective search space used: 482316624
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: 55 (24.7 bits)