RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1670
(68 letters)
>gnl|CDD|215180 PLN02316, PLN02316, synthase/transferase.
Length = 1036
Score = 32.9 bits (75), Expect = 0.005
Identities = 17/56 (30%), Positives = 33/56 (58%), Gaps = 4/56 (7%)
Query: 1 MADDAAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAA 56
+A + A++ +QAE R+R E + A +A +A+ +R++KL+ LL+K +
Sbjct: 261 LAKEEAERERQAEEQRRREEEKA----AMEADRAQAKAEVEKRREKLQNLLKKASR 312
Score = 26.8 bits (59), Expect = 0.78
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 14 IDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKL--RLLLRKK 54
I RK E R+ EEA +AK K M E K+K LL +K
Sbjct: 435 IYRKLQEERRLREEAIRAKAEKTARMKAEMKEKTLKMFLLSQK 477
>gnl|CDD|238932 cd01972, Nitrogenase_VnfE_like, Nitrogenase_VnfE_like: VnfE subunit
of the VnfEN complex_like. This group in addition to
VnfE contains a subset of the alpha subunit of the
nitrogenase MoFe protein and NifE-like proteins. The
nitrogenase enzyme system catalyzes the ATP-dependent
reduction of dinitrogen to ammonia. NifEN participates
in the synthesis of the iron-molybdenum cofactor
(FeMoco) of MoFe protein of the
molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur
containing precursor of the FeMoco) from NifB is
transferred to NifEN where it is further processed to
FeMoco. VnfEN may similarly be a scaffolding protein
for the iron-vanadium cofactor (FeVco) of the
vanadium-dependent (V)-nitrogenase. NifE and NifN are
essential for the Mo-nitrogenase, VnfE and VnfN are not
essential for the V-nitrogenase. NifE and NifN can
substitute when the vnfEN genes are inactivated.
Length = 426
Score = 29.7 bits (67), Expect = 0.068
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 12 AEIDRKRAEVRKRMEEASKAKKAKKGFMT 40
A I+R+ V +EE KA K KK +
Sbjct: 271 AVIEREHERVAPEIEELRKALKGKKAIVE 299
>gnl|CDD|216807 pfam01956, DUF106, Integral membrane protein DUF106. This
archaebacterial protein family has no known function.
Members are predicted to be integral membrane proteins.
Length = 168
Score = 28.4 bits (64), Expect = 0.17
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 12/52 (23%)
Query: 14 IDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELKKEQER 65
IDRK + +KR +E K R ++LR K + ++ +K QE
Sbjct: 38 IDRKMEKYQKREKEIQK------------RARELRKNGDKLSPKKFEKRQEE 77
>gnl|CDD|129965 TIGR00887, 2A0109, phosphate:H+ symporter. This model represents
the phosphate uptake symporter subfamily of the major
facilitator superfamily (pfam00083) [Transport and
binding proteins, Anions].
Length = 502
Score = 28.5 bits (64), Expect = 0.17
Identities = 17/59 (28%), Positives = 23/59 (38%), Gaps = 12/59 (20%)
Query: 4 DAAKKAKQAEIDRKR-------AEVRKRMEEASKAKKAKK----GFMTPERKKKLRLLL 51
D AK +QA D AE + +E+AS A + K F T K + L
Sbjct: 233 DVAKDVEQAASDMSAVLQVKIEAEPDE-VEKASTAVEVPKASWSDFFTHFFKWRHGKHL 290
>gnl|CDD|221313 pfam11917, DUF3435, Protein of unknown function (DUF3435). This
family of proteins are functionally uncharacterized.
This protein is found in eukaryotes. Proteins in this
family are typically between 435 to 791 amino acids in
length. This family is related to pfam00589 suggesting
it may be an integrase enzyme.
Length = 418
Score = 26.9 bits (60), Expect = 0.67
Identities = 16/60 (26%), Positives = 27/60 (45%)
Query: 8 KAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELKKEQERKV 67
+Q ID +R + E K + + PER + + LL +E L+ E ER++
Sbjct: 350 DEEQPVIDIERQLSGLAVSEEVKEDLPDEQLVPPERIRLISKLLTWPTSETLEDELERRI 409
>gnl|CDD|236698 PRK10475, PRK10475, 23S rRNA pseudouridine synthase F; Provisional.
Length = 290
Score = 27.0 bits (60), Expect = 0.72
Identities = 16/44 (36%), Positives = 21/44 (47%)
Query: 5 AAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLR 48
A K K A I R ++ K E+ + K F +P RKKK R
Sbjct: 247 AKAKPKTAGIKRPVVKMEKTAEKGGRPASNGKRFTSPGRKKKGR 290
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 26.4 bits (59), Expect = 0.99
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 19 AEVRKRMEEASKAKKAKKGFMTP----ERKKKLRLLLRKKAAEELKKEQERKV 67
AE+R +E KA++AK F ER+K R KKAAE + + V
Sbjct: 436 AEIRAIEQEKKKAEEAKARFEARQARLEREKAAREARHKKAAEARAAKDKDAV 488
>gnl|CDD|143463 cd07145, ALDH_LactADH_F420-Bios, Methanocaldococcus jannaschii
NAD+-dependent lactaldehyde dehydrogenase-like.
NAD+-dependent, lactaldehyde dehydrogenase
(EC=1.2.1.22) involved the biosynthesis of coenzyme
F(420) in Methanocaldococcus jannaschii through the
oxidation of lactaldehyde to lactate and generation of
NAPH, and similar sequences are included in this CD.
Length = 456
Score = 26.5 bits (59), Expect = 1.0
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 18 RAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELKKEQER 65
R EVR+ +E A KAK +R K L K AE +++ +E
Sbjct: 20 REEVREAIEVAEKAKDVMSNLPAYKRYKILM-----KVAELIERRKEE 62
>gnl|CDD|237855 PRK14900, valS, valyl-tRNA synthetase; Provisional.
Length = 1052
Score = 26.1 bits (57), Expect = 1.6
Identities = 20/58 (34%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 1 MADDAAKKAKQAEIDRKRAEVRKRMEEASKAKK--AKKGFMTPERKKKLRLLLRKKAA 56
M AKKA + K+A +K + AKK AKK P KK + RK A
Sbjct: 992 MKKKVAKKAPAKKAAAKKAAAKKAAAKKKVAKKAPAKKVARKPAAKKAAKKPARKAAG 1049
>gnl|CDD|215364 PLN02678, PLN02678, seryl-tRNA synthetase.
Length = 448
Score = 25.8 bits (57), Expect = 1.6
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 1/59 (1%)
Query: 4 DAAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELKKE 62
D + +Q E+D R E K +E +K K A K T + L E +E
Sbjct: 39 DKEWRQRQFELDSLRKEFNKLNKEVAKLKIA-KEDATELIAETKELKKEITEKEAEVQE 96
>gnl|CDD|237894 PRK15064, PRK15064, ABC transporter ATP-binding protein;
Provisional.
Length = 530
Score = 25.2 bits (56), Expect = 3.0
Identities = 15/34 (44%), Positives = 23/34 (67%), Gaps = 3/34 (8%)
Query: 1 MADDAAKKAKQAEIDRKRAEVRKRMEEASKAKKA 34
+AD+A KKA+ AE+ ++ V + ASKAK+A
Sbjct: 252 LADNAKKKAQIAEL---QSFVSRFSANASKAKQA 282
>gnl|CDD|222968 PHA03065, PHA03065, Hypothetical protein; Provisional.
Length = 438
Score = 24.9 bits (55), Expect = 3.6
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 2/47 (4%)
Query: 7 KKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRK 53
+KA + I RKR E+ K E M E K L L + K
Sbjct: 89 RKASKNTIKRKREEIEKL--EDDIKNLDVDDEMYEEIKTDLELKIDK 133
>gnl|CDD|131844 TIGR02797, exbB, tonB-system energizer ExbB. This model
describes ExbB proteins, part of the MotA/TolQ/ExbB
protein family. The paired proteins MotA and MotB, TolQ
and TolR, and ExbB and ExbD harness the proton-motive
force to drive the flagellar motor, energize the
Tol-Pal system, or energize TonB, respectively. Tol-Pal
and TonB are both active at the outer membrane. Genomes
may have many different TonB-dependent receptors, of
which many of those characterized are involved in
siderophore transport across the outer membrane
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 211
Score = 24.7 bits (54), Expect = 4.2
Identities = 9/52 (17%), Positives = 22/52 (42%)
Query: 9 AKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELK 60
AK E+ R +++ ++ +A+ + + L + A EE++
Sbjct: 33 AKSVELAGARRRLKRALKALGEARTLAEAQEALGDRGGPAAALVRAAEEEME 84
>gnl|CDD|216748 pfam01866, Diphthamide_syn, Putative diphthamide synthesis protein.
Human DPH1 is a candidate tumour suppressor gene. DPH2
from yeast, which confers resistance to diphtheria
toxin, has been found to be involved in diphthamide
synthesis. Diphtheria toxin inhibits eukaryotic protein
synthesis by ADP-ribosylating diphthamide, a
posttranslationally modified histidine residue present
in EF2. The exact function of the members of this family
is unknown.
Length = 300
Score = 24.5 bits (54), Expect = 4.2
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 4/46 (8%)
Query: 21 VRKRMEEASKAKKAKK-GFM--TPERKKKLRLLLR-KKAAEELKKE 62
+R+R KAK AK G + T + + L R KK +E K
Sbjct: 190 LRRRYAAIEKAKDAKSFGIIVGTKGGQGRPDLARRLKKLLKERGKR 235
>gnl|CDD|227136 COG4799, COG4799, Acetyl-CoA carboxylase, carboxyltransferase
component (subunits alpha and beta) [Lipid metabolism].
Length = 526
Score = 24.5 bits (54), Expect = 4.3
Identities = 12/43 (27%), Positives = 17/43 (39%), Gaps = 1/43 (2%)
Query: 2 ADDAAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTP-ER 43
K AE+ +RA E + K+ KG +T ER
Sbjct: 6 MVAMTMAEKVAELRERRAIAVAGGGEKAVEKQHGKGKLTARER 48
>gnl|CDD|224032 COG1107, COG1107, Archaea-specific RecJ-like exonuclease, contains
DnaJ-type Zn finger domain [DNA replication,
recombination, and repair].
Length = 715
Score = 24.7 bits (54), Expect = 4.4
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 4/48 (8%)
Query: 17 KRAEVRKRMEEA--SKAKKAKKGFMT-PERKKKLRLLLRKKAAEELKK 61
+ AEVRKR++EA +A+ A GF+ E + L+ + A+E+++
Sbjct: 292 EAAEVRKRIDEALDRRAEPADVGFLVDSEVLEALKPDMV-DVAKEIRR 338
>gnl|CDD|240402 PTZ00399, PTZ00399, cysteinyl-tRNA-synthetase; Provisional.
Length = 651
Score = 24.6 bits (54), Expect = 4.5
Identities = 17/62 (27%), Positives = 26/62 (41%), Gaps = 6/62 (9%)
Query: 7 KKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELKKEQERK 66
K+ Q E + K A ++ K ++ KK +K+ +L K E K QE K
Sbjct: 550 KEELQREKEEKEALKEQKRLRKLKKQEEKK------KKELEKLEKAKIPPAEFFKRQEDK 603
Query: 67 VS 68
S
Sbjct: 604 YS 605
>gnl|CDD|215039 PLN00041, PLN00041, photosystem I reaction center subunit II;
Provisional.
Length = 196
Score = 24.2 bits (52), Expect = 5.9
Identities = 10/34 (29%), Positives = 13/34 (38%)
Query: 9 AKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPE 42
A + RA E + AK+A GF P
Sbjct: 26 KAPASLSATRAVRAAAAAEEAAAKEAPVGFTPPT 59
>gnl|CDD|215278 PLN02502, PLN02502, lysyl-tRNA synthetase.
Length = 553
Score = 24.2 bits (53), Expect = 6.2
Identities = 12/40 (30%), Positives = 18/40 (45%)
Query: 5 AAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERK 44
+K A + + K+AE K +E +KA A RK
Sbjct: 8 LSKNALKKRLKAKQAEEEKAAKEEAKAAAAAAAAKGRSRK 47
>gnl|CDD|232919 TIGR00322, diphth2_R, diphthamide biosynthesis enzyme Dph1/Dph2
domain. Archaea and Eukaryotes, but not Eubacteria,
share the property of having a covalently modified
residue,
2'-[3-carboxamido-3-(trimethylammonio)propyl]histidine,
as a part of a cytosolic protein. The modified His,
termed diphthamide, is part of translation elongation
factor EF-2 and is the site for ADP-ribosylation by
diphtheria toxin. This model includes both Dph1 and Dph2
from Saccharomyces cerevisiae, although only Dph2 is
found in the Archaea (see TIGR03682). Dph2 has been
shown to act analogously to the radical SAM (rSAM)
family (pfam04055), with 4Fe-4S-assisted cleavage of
S-adenosylmethionine to create a free radical, but a
different organic radical than in rSAM.
Length = 319
Score = 24.1 bits (53), Expect = 6.5
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 22 RKRMEEASKAKKAKK-GFM--TPERKKKLRLLLR-KKAAEELKKE 62
R+R KAK AKK G + T + +L L R K+ ++ K+
Sbjct: 222 RRRYALIEKAKDAKKVGIIVGTLGGQGRLELAERLKELLKKAGKK 266
>gnl|CDD|235461 PRK05431, PRK05431, seryl-tRNA synthetase; Provisional.
Length = 425
Score = 24.3 bits (54), Expect = 6.5
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 7/67 (10%)
Query: 4 DAAKKAKQAEIDRKRAEVRKRMEEASK--AKKAKKGFMTPERKKKLRLLLRK-KAAEELK 60
D ++ Q E++ +AE R SK + +KG +++ L + KA E
Sbjct: 34 DEERRELQTELEELQAE-RN---ALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAEL 89
Query: 61 KEQERKV 67
E E ++
Sbjct: 90 DELEAEL 96
>gnl|CDD|226774 COG4324, COG4324, Predicted aminopeptidase [General function
prediction only].
Length = 376
Score = 24.2 bits (52), Expect = 7.1
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 1 MADDAAKKAKQAEIDRKRAEVRK 23
AD+ + K A DR R +
Sbjct: 276 RADEQKRAGKAATFDRLRMRYAQ 298
>gnl|CDD|218845 pfam05991, NYN_YacP, YacP-like NYN domain. This family consists of
bacterial proteins related to YacP. This family is
uncharacterized functionally, but it has been suggested
that these proteins are nucleases due to them containing
a NYN domain. NYN (for N4BP1, YacP-like Nuclease)
domains were discovered by Anantharaman and Aravind.
Based on gene neighborhoods it was suggested that the
bacterial YacP proteins interact with the Ribonuclease
III and TrmH methylase in a processome complex that
catalyzes the maturation of rRNA and tRNA.
Length = 165
Score = 24.1 bits (53), Expect = 7.3
Identities = 12/40 (30%), Positives = 22/40 (55%)
Query: 13 EIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLR 52
E+ R ++RK+ E+ K++K ++ E +KL L R
Sbjct: 126 EVKRAEKKIRKKAEKRRKSRKKYLDRLSDEVLEKLEKLRR 165
>gnl|CDD|223562 COG0488, Uup, ATPase components of ABC transporters with duplicated
ATPase domains [General function prediction only].
Length = 530
Score = 23.7 bits (52), Expect = 8.0
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 16/71 (22%)
Query: 5 AAKKAKQAEIDRKRAEVRKRMEE--------ASKAKKAKKGFMTPERKKKLRLLLRKKAA 56
A + ++A K+ + + +E ASKAKKAK R K RL +
Sbjct: 243 AERLRQEAAAYEKQQKELAKEQEWIRRGKAAASKAKKAKS------RIK--RLEKLEARL 294
Query: 57 EELKKEQERKV 67
E + +E K
Sbjct: 295 AEERPVEEGKP 305
>gnl|CDD|181749 PRK09276, PRK09276, LL-diaminopimelate aminotransferase;
Provisional.
Length = 385
Score = 23.7 bits (52), Expect = 8.5
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 12 AEIDRKRAEVRKR 24
AEID+K+AE R
Sbjct: 17 AEIDKKKAEKIAR 29
>gnl|CDD|237018 PRK11905, PRK11905, bifunctional proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1208
Score = 23.7 bits (52), Expect = 9.3
Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 3 DDAAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKG-FMTPERKKKLRLLLRKKAAEELKK 61
D A+ +A I+ RA R + + + +KG F+ P L+ + +L++
Sbjct: 866 DAEAQANIEAHIEAMRAAGR-LVHQLPLPAETEKGTFVAPT-------LIEIDSISDLER 917
Query: 62 EQ 63
E
Sbjct: 918 EV 919
>gnl|CDD|226683 COG4230, COG4230, Delta 1-pyrroline-5-carboxylate dehydrogenase
[Energy production and conversion].
Length = 769
Score = 23.9 bits (52), Expect = 9.4
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 9/61 (14%)
Query: 3 DDAAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKG-FMTPERKKKLRLLLRKKAAEELKK 61
D AK + I R++ R + +A+ +KG F+ P L+ + +EL++
Sbjct: 426 DAEAKANIEKHIQTMRSKGRL-VHQAAAPNSLQKGTFVAP-------TLIELENLDELQR 477
Query: 62 E 62
E
Sbjct: 478 E 478
>gnl|CDD|235773 PRK06291, PRK06291, aspartate kinase; Provisional.
Length = 465
Score = 23.7 bits (52), Expect = 9.7
Identities = 14/61 (22%), Positives = 32/61 (52%), Gaps = 6/61 (9%)
Query: 1 MADDAAKKAKQAEIDRKRAEVRKRMEEASKAKKAKKGFMTPERKKKLRLLLRKKAAEELK 60
+A+ A A++ A++R+R +A ++A K P+ ++++ + + EEL+
Sbjct: 52 IAEQALDVRDIAKVKDFIADLRERHYKA--IEEAIK---DPDIREEVSKTIDSR-IEELE 105
Query: 61 K 61
K
Sbjct: 106 K 106
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
0.307 0.120 0.291
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,402,653
Number of extensions: 272311
Number of successful extensions: 1616
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1282
Number of HSP's successfully gapped: 410
Length of query: 68
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 29
Effective length of database: 9,207,796
Effective search space: 267026084
Effective search space used: 267026084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 53 (24.2 bits)