RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9440
(521 letters)
>gnl|CDD|144338 pfam00698, Acyl_transf_1, Acyl transferase domain.
Length = 319
Score = 82.8 bits (205), Expect = 2e-17
Identities = 32/136 (23%), Positives = 50/136 (36%), Gaps = 14/136 (10%)
Query: 136 AFHSKYIAEAGPKLRSSLDRIIPAPKPRSARWISSSIPEDHWGTPLAQQSSPAYHVNNLL 195
A HS + G L +L I P PR + ++S ++ Y NL
Sbjct: 191 ASHSPQVEAIGDALALALADIAP-RTPRVPFYSTTSGDPS-----DQRELDAEYWYRNLR 244
Query: 196 SPVLFYEALQHV--PENAVVIEIAPHALLQAIIKR-----AKPGAVSIGLTKRGAPDLPA 248
+PV F EA+ V +E++PH +L A ++ A +G R D
Sbjct: 245 NPVRFAEAVLAAAEQGYLVFVEVSPHPVLLAAVEETLKSADGKDATLVGTLIRDQGD-LV 303
Query: 249 HLLSGLGKLYNAGLQP 264
L L + G+
Sbjct: 304 TFLYALAVAHLTGVAV 319
Score = 69.4 bits (170), Expect = 7e-13
Identities = 24/76 (31%), Positives = 39/76 (51%), Gaps = 2/76 (2%)
Query: 62 WYVFSGMGSQWAGMVKGLLH-IPVFDQSIRKSAEALRGE-NFDLIPVITSEDADTFEHIL 119
+VFSG GSQWAGM LL PVF +I + EA + + F ++ V+ + E +
Sbjct: 1 VFVFSGQGSQWAGMGMDLLKTSPVFAAAIARCDEAFKPQYGFSVLDVLRNNPEGLLERVD 60
Query: 120 NSFVSIAAVQVSENRH 135
++ A+Q++
Sbjct: 61 VVQPALFAMQIALAAL 76
Score = 30.8 bits (70), Expect = 1.8
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 1 IALVDLLSSVGISPEGIVGHS 21
IAL LL S G++P +VGHS
Sbjct: 71 IALAALLRSYGVTPAAVVGHS 91
>gnl|CDD|225858 COG3321, COG3321, Polyketide synthase modules and related proteins
[Secondary metabolites biosynthesis, transport, and
catabolism].
Length = 1061
Score = 62.5 bits (152), Expect = 4e-10
Identities = 73/339 (21%), Positives = 110/339 (32%), Gaps = 41/339 (12%)
Query: 126 AAVQVSENRHAFHSKYIAEAGPKLRSSLDRIIPAPKPRSARWISSSIPEDHWGTPLAQQS 185
+ VS HAFHS + + ++L + AP+P IS+
Sbjct: 713 RRLAVS---HAFHSPLMDPILDEFAAALADL--APRPPQIPLISNV----TGDLAGEPGG 763
Query: 186 SPAYHVNNLLSPVLFYEALQHVPENA--VVIEIAPHALLQAIIKRAKPGAVSIGLTKRGA 243
Y V +L PV F +A+ + IE+ P +L IK+ A+ T R
Sbjct: 764 DAQYWVQHLRQPVRFADAIAAALADGARTFIEVGPGPVLTESIKQTLRDAILSIATLRRD 823
Query: 244 PDLPAHLLSGLGKLYNAGLQPRLNQLLPPVK-FPVGRGTPMIQSLVEWDHSTEWSVASFA 302
L+ L +L+ AG+ + L+ V T Q W VAS
Sbjct: 824 APELLSFLAALAQLFVAGVAVDWSPLVYGPDGRLVELPTYPFQRQRFWLDPEALGVASHP 883
Query: 303 GKGGSR----SGECVIDVDLSKEEDAYLSGHAIDGRILFPATGTEE----AVEHFLQKIE 354
G SGE V+ L +L+ H + P E A + +
Sbjct: 884 LLGAVLGRPSSGEVVLQGSLDLLAVPWLADHDVRNVAALPGAAYVELALAAADEVGGGLV 943
Query: 355 SIPRDDEFIALLHE-----IHNTNIAG-HPYRGEFELCESGSVAVSGRIRTPEDVSKEQL 408
+ P D E L + I + + A S R+
Sbjct: 944 AKPLDVESRLELAQQVDISIAAPIQPQVLYFTAWLRHATAFLEASSARLPG--------- 994
Query: 409 DLPELTPAISSEMLELSSADVYKDLRLRGYDYSGAFRGV 447
D+ L A L D+Y L G +Y AF G+
Sbjct: 995 DIELLAAA-----LAKDVDDLYGLLA-SGGEYGPAFIGL 1027
Score = 35.5 bits (82), Expect = 0.077
Identities = 25/75 (33%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 58 KRPVWYVFSGMGSQWAGMVKGLL-HIPVFDQSIRKSAEALRGEN-FDLIPVITSEDADTF 115
+ +VF G GSQWAGM + L PVF + L F L VI + D
Sbjct: 524 GKKTVFVFPGQGSQWAGMGRELYALEPVFASAFDALEALLHRLLGFSLPEVIFAPDYPFL 583
Query: 116 EHILNSFVSIAAVQV 130
E I + ++ AV V
Sbjct: 584 ESIDFAQPALFAVSV 598
>gnl|CDD|214838 smart00827, PKS_AT, Acyl transferase domain in polyketide synthase
(PKS) enzymes.
Length = 298
Score = 57.8 bits (141), Expect = 3e-09
Identities = 32/111 (28%), Positives = 53/111 (47%), Gaps = 15/111 (13%)
Query: 128 VQVSENRHAFHSKYIAEAGPKLRSSLDRIIPAPKPRSARWISSSIPEDHWGTPL--AQQS 185
++V HAFHS ++ + R++L + P P PR ++S+ GT + A+
Sbjct: 186 LKVD---HAFHSPHMEPILDEFRAALAGLTPRP-PRIP-FVSTVT-----GTLIDGAELD 235
Query: 186 SPAYHVNNLLSPVLFYEALQHVPENA---VVIEIAPHALLQAIIKRAKPGA 233
Y V NL PV F +A++ + V +E+ PH +L IK+ A
Sbjct: 236 DADYWVRNLREPVRFADAVRALLAEGGVTVFLEVGPHPVLTGPIKQTLAAA 286
Score = 54.3 bits (132), Expect = 5e-08
Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 3/71 (4%)
Query: 64 VFSGMGSQWAGMVKGLL-HIPVFDQSIRKSAEALRGE-NFDLIPVITSEDADT-FEHILN 120
VF+G GSQWAGM + L PVF +++ + AL+ + L+ V+ ED
Sbjct: 1 VFTGQGSQWAGMGRELYETEPVFREALDECDAALQPLLGWSLLDVLLGEDGAASLLDTEV 60
Query: 121 SFVSIAAVQVS 131
+ ++ AVQV+
Sbjct: 61 AQPALFAVQVA 71
Score = 36.6 bits (86), Expect = 0.024
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 1 IALVDLLSSVGISPEGIVGHS 21
+AL LL S G+ P+ +VGHS
Sbjct: 70 VALARLLRSWGVRPDAVVGHS 90
>gnl|CDD|214837 smart00826, PKS_DH, Dehydratase domain in polyketide synthase (PKS)
enzymes.
Length = 167
Score = 39.9 bits (94), Expect = 8e-04
Identities = 28/165 (16%), Positives = 50/165 (30%), Gaps = 32/165 (19%)
Query: 307 SRSGECVIDVDLSKEEDAYLSGHAIDGRILFPATG---------------TEEAVEHFLQ 351
+ G V+ LS +L+ H + G ++ P +E
Sbjct: 11 ADGGGVVLTGRLSLRTHPWLADHRVGGTVVLPGAAYVELALAAADEVGGGAPARLEELT- 69
Query: 352 KIES---IPRDDEFIALLHEIHNTNIAGHPYRGEFEL--CESGSVA----VSGRIRTPED 402
+E+ +P D + R F + G +G +R
Sbjct: 70 -LEAPLVLPEDGAVRVQVV----VGAPDEDGRRTFTVYSRPDGDGPWTRHATGTLRPAAA 124
Query: 403 VSKEQLDLPELTPAISSEMLELSSADVYKDLRLRGYDYSGAFRGV 447
P +E + D+Y+ L RG +Y AF+G+
Sbjct: 125 APAAPAADLAAWPPAGAE--PVDVDDLYERLAARGLEYGPAFQGL 167
>gnl|CDD|233680 TIGR02001, gcw_chp, conserved hypothetical protein,
proteobacterial. This model represents a conserved
hypothetical protein about 240 residues in length found
so far in Proteobacteria including Shewanella
oneidensis, Ralstonia solanacearum, and Colwellia
psychrerythraea, usually as part of a paralogous family.
The function is unknown.
Length = 243
Score = 33.2 bits (76), Expect = 0.26
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 8/35 (22%)
Query: 444 FRGVSQSDNKG-FTGKLDWT-------GNWISYID 470
FRGVSQ+++ G LD++ G W S +D
Sbjct: 46 FRGVSQTNSDPAIQGGLDYSHESGFYAGVWASNVD 80
>gnl|CDD|223408 COG0331, FabD, (acyl-carrier-protein) S-malonyltransferase [Lipid
metabolism].
Length = 310
Score = 33.4 bits (77), Expect = 0.28
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 12/73 (16%)
Query: 63 YVFSGMGSQWAGMVKGLLHIP-----VFDQSIRKSAEALRGENFDLIPVITSEDADTFEH 117
+VF G GSQ GM K L FD+ + EAL FDL ++ +
Sbjct: 6 FVFPGQGSQSLGMGKDLYENSPEAKETFDE----ADEALG---FDLWALVFEGPEEELNL 58
Query: 118 ILNSFVSIAAVQV 130
N+ ++ V +
Sbjct: 59 TQNTQPALLLVSL 71
Score = 28.4 bits (64), Expect = 8.7
Identities = 10/18 (55%), Positives = 11/18 (61%)
Query: 32 YVFSGMGSQWAGMVKGLL 49
+VF G GSQ GM K L
Sbjct: 6 FVFPGQGSQSLGMGKDLY 23
>gnl|CDD|217683 pfam03709, OKR_DC_1_N, Orn/Lys/Arg decarboxylase, N-terminal
domain. This domain has a flavodoxin-like fold, and is
termed the "wing" domain because of its position in the
overall 3D structure.
Length = 111
Score = 31.4 bits (72), Expect = 0.28
Identities = 12/43 (27%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 89 IRKSAEALRGENFDLIPVITSEDADTFEHILNSFVSIAAVQVS 131
R+ AEAL +++ +++D ++ +F IAAV +S
Sbjct: 6 SRELAEALERTGREVVYATSTDDL---LSLIENFTDIAAVVLS 45
>gnl|CDD|223924 COG0855, Ppk, Polyphosphate kinase [Inorganic ion transport and
metabolism].
Length = 696
Score = 32.6 bits (75), Expect = 0.52
Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 8/69 (11%)
Query: 103 LIPVITS---EDADTFEHILNSFVSIAAVQVSENRHAFHSKYIAEAGPKLRSSLDRIIPA 159
+ PV+T + A F + N +++A V++ + AF Y A K+ S L R +
Sbjct: 138 IFPVLTPLALDPAHPFPFLSNLSLNLA-VEI-RGKDAFGEHY---ALVKIPSVLPRFVEL 192
Query: 160 PKPRSARWI 168
P + R
Sbjct: 193 PSELAGRGR 201
>gnl|CDD|185618 PTZ00438, PTZ00438, gamete antigen 27/25-like protein; Provisional.
Length = 374
Score = 32.3 bits (73), Expect = 0.62
Identities = 19/73 (26%), Positives = 35/73 (47%), Gaps = 8/73 (10%)
Query: 334 RILFPATGTE-EAVEHFLQKIESIPRDDE-------FIALLHEIHNTNIAGHPYRGEFEL 385
+ +F TE + E +L KI + D+E I +L E++ +R FE+
Sbjct: 188 KSIFLIFFTEFDTTETYLNKIINCATDEEKNELLDDHIGILKEMYENCKKHDNFRLPFEI 247
Query: 386 CESGSVAVSGRIR 398
+S ++ +S R+R
Sbjct: 248 RDSMALRISDRLR 260
>gnl|CDD|131900 TIGR02853, spore_dpaA, dipicolinic acid synthetase, A subunit.
This predicted Rossman fold-containing protein is the A
subunit of dipicolinic acid synthetase as found in most,
though not all, endospore-forming low-GC Gram-positive
bacteria; it is absent in Clostridium. The B subunit is
represented by TIGR02852. This protein is also known as
SpoVFA [Cellular processes, Sporulation and
germination].
Length = 287
Score = 30.4 bits (69), Expect = 2.2
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 17/63 (26%)
Query: 191 VNNLLSPVLFYEALQHVPENAVVIEIAPHALLQAIIKRAKPGAV------SIGLTKRGAP 244
+N + + VL + L +P++AV+I++A +KPG G+ AP
Sbjct: 214 INTIPALVLTADVLSKLPKHAVIIDLA-----------SKPGGTDFEYAKKRGIKALLAP 262
Query: 245 DLP 247
LP
Sbjct: 263 GLP 265
>gnl|CDD|216072 pfam00708, Acylphosphatase, Acylphosphatase.
Length = 90
Score = 27.9 bits (63), Expect = 3.4
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 326 LSGHA---IDGRILFPATGTEEAVEHFLQKIESIP 357
L G+ DG + A G EE V+ F++ ++S P
Sbjct: 31 LKGYVRNLPDGTVEIVAQGPEEDVDKFIEWLKSGP 65
>gnl|CDD|219326 pfam07194, P2, P2 response regulator binding domain. The response
regulators for CheA bind to the P2 domain, which is
found between pfam01627 and pfam02895 as either one or
two copies. Highly flexible linkers connect P2 to the
rest of CheA and impart remarkable mobility to the P2
domain. This feature is thought to enhance the inter
CheA dimer phosphotransfer reactions within the
signalling complex, thereby amplifying the
phosphorylation signal.
Length = 83
Score = 27.5 bits (62), Expect = 4.4
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 92 SAEALRGENFDL---IPVITSEDADTFEHILNSFVSIAAVQVSE 132
S E + E FD + ++T E + E IL + V+V+E
Sbjct: 39 SVEEIEDEKFDGEFEVLLVTKESKEEIEEILAKISEVEEVEVTE 82
>gnl|CDD|205017 pfam12682, Flavodoxin_4, Flavodoxin. This is a family of
flavodoxins. Flavodoxins are electron transfer proteins
that carry a molecule of non-covalently bound FMN.
Length = 156
Score = 28.6 bits (64), Expect = 4.4
Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 5/57 (8%)
Query: 297 SVASFAGKGGSRSGECVIDVDLSKEEDAYLSGHAIDGRILFPATGTEEAVEHFLQKI 353
V F GGS G ++ + AY ++G++L T + V +L+K+
Sbjct: 105 IVIPFCTSGGSGIGNTEKNL-----QQAYPDAVWLEGKLLNRGQVTRDEVTEWLKKL 156
>gnl|CDD|215401 PLN02752, PLN02752, [acyl-carrier protein] S-malonyltransferase.
Length = 343
Score = 29.3 bits (66), Expect = 5.0
Identities = 12/45 (26%), Positives = 19/45 (42%)
Query: 8 SSVGISPEGIVGHSDFNGEKRPVWYVFSGMGSQWAGMVKGLLHIP 52
SV + + + F K ++F G G+Q GM K +P
Sbjct: 18 MSVSVGSQATAADALFADYKPTTAFLFPGQGAQAVGMGKEAAEVP 62
>gnl|CDD|205181 pfam12997, DUF3881, Domain of unknown function, E. rectale Gene
description (DUF3881). Based on Eubacterium rectale
gene EUBREC_3695. As seen in gene expression experiments
(http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14
737), it appears to be upregulated in the presence of
Bacteroides thetaiotaomicron vs when isolated in
culture.
Length = 283
Score = 28.7 bits (65), Expect = 7.0
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 320 KEEDAYLSGHAIDGRILFPATGTEEAVE 347
K + LSG ++ G+IL P EE
Sbjct: 131 KAKSVTLSGLSVSGKILLPVNKDEEQER 158
>gnl|CDD|233560 TIGR01760, tape_meas_TP901, phage tail tape measure protein, TP901
family, core region. This model represents a reasonably
well conserved core region of a family of phage tail
proteins. The member from phage TP901-1 was
characterized as a tail length tape measure protein in
that a shortened form of the protein leads to phage with
proportionately shorter tails [Mobile and
extrachromosomal element functions, Prophage functions].
Length = 350
Score = 28.9 bits (65), Expect = 7.4
Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 5/78 (6%)
Query: 1 IALVDLLSSVGISPEGIVGHSDFNGEKRPVWYVFSGMGSQWAGMVKGLLHIPDFNGEKRP 60
A L+S GI E I G + R + + G + K + D G +
Sbjct: 157 AAATAALASAGIEGE-IAGTALKAMLSR----LAAPTGKAAKALKKLGIQTRDAKGNMKA 211
Query: 61 VWYVFSGMGSQWAGMVKG 78
+ V + GM
Sbjct: 212 LLDVLKELQKLTKGMGTE 229
>gnl|CDD|216448 pfam01347, Vitellogenin_N, Lipoprotein amino terminal region. This
family contains regions from: Vitellogenin, Microsomal
triglyceride transfer protein and apolipoprotein B-100.
These proteins are all involved in lipid transport. This
family contains the LV1n chain from lipovitellin, that
contains two structural domains.
Length = 579
Score = 28.8 bits (65), Expect = 7.7
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 324 AYLSGHAIDGRILF----PATGTEEAVEHFLQKIES 355
L D R +F GT A++ Q I+S
Sbjct: 338 RQLYAKKKDARRIFLDAVAQAGTPPALKFIKQWIKS 373
>gnl|CDD|149766 pfam08809, DUF1799, Phage related hypothetical protein (DUF1799).
Members of this family are about 100 amino acids in
length and are uncharacterized.
Length = 83
Score = 26.9 bits (60), Expect = 8.1
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 3/33 (9%)
Query: 57 EKRPVWYVFSGMGSQW---AGMVKGLLHIPVFD 86
E P +F M +QW GL + +F
Sbjct: 21 ENWPAVDLFIAMSTQWRVGPAGATGLDYSVLFA 53
>gnl|CDD|216820 pfam01974, tRNA_int_endo, tRNA intron endonuclease, catalytic
C-terminal domain. Members of this family cleave pre
tRNA at the 5' and 3' splice sites to release the intron
EC:3.1.27.9.
Length = 85
Score = 26.9 bits (60), Expect = 8.5
Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 6/23 (26%)
Query: 429 VYKDLRLRGY------DYSGAFR 445
VY+DLR RGY + FR
Sbjct: 7 VYRDLRERGYVVRSGLKFGADFR 29
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
0.318 0.136 0.409
Gapped
Lambda K H
0.267 0.0893 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 27,495,251
Number of extensions: 2753419
Number of successful extensions: 2389
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2377
Number of HSP's successfully gapped: 36
Length of query: 521
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 420
Effective length of database: 6,457,848
Effective search space: 2712296160
Effective search space used: 2712296160
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 (21.7 bits)
S2: 61 (27.0 bits)