RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14636
(447 letters)
>gnl|CDD|217340 pfam03055, RPE65, Retinal pigment epithelial membrane protein.
This family represents a retinal pigment epithelial
membrane receptor which is abundantly expressed in
retinal pigment epithelium, and binds plasma retinal
binding protein. The family also includes the sequence
related neoxanthin cleavage enzyme in plants and
lignostilbene-alpha,beta-dioxygenase in bacteria.
Length = 469
Score = 315 bits (810), Expect = e-103
Identities = 150/481 (31%), Positives = 215/481 (44%), Gaps = 64/481 (13%)
Query: 5 EVDQPVQGTVEGVIPSWIDGVLIRNGPGSWNVGEESFDHLFDCSGLLHRFKISSGLVTYQ 64
E+ VEG IP+ ++G L RNGPG G + H FD G+LH F+ G VTY+
Sbjct: 8 ELPDAEDLEVEGEIPADLNGTLYRNGPGPLERGGFRYHHWFDGDGMLHAFRFEDGRVTYR 67
Query: 65 CKFIKSESYIKNHAARRIVVTGFGTRFVPDPCASIFQRIATLFKPGSDNTLVSVYPIQDQ 124
+F+++E Y AA R + G PDPC +IF R + + +V +
Sbjct: 68 NRFVRTEGYKAERAAGRRLYPGEFGTLKPDPCKNIFPR---VPGKLKNVANTNVVYHGGR 124
Query: 125 VYALGDSNYMHRIDPATLDTLGKIDLAGDVTILHQ-TSHPLT-TSDGETFNLGVTLRPTG 182
+ AL ++ +R+DP TL+TLG+ D G + T+HP GE N G++L P
Sbjct: 125 LLALWEAGLPYRLDPETLETLGRYDFGGKLKPGPPFTAHPKVDPVTGELVNFGLSLGPKP 184
Query: 183 PRYCILQLN---------DAFSYPD--------------------LSHPPPP------PP 207
P +++ FS P L P
Sbjct: 185 PYLTYYEVDADGKLVREVPIFSLPGPSMIHDFAITENYVIFPDLPLVFDPLRLLLGGRAD 244
Query: 208 SLRFRDDIDMTSTIFHVLDKTNG-SVVHRFQADSFFYLHIINAYEDTNDGIVVDICCYRN 266
LR+ + T F V+ + G S V F+A F H NA+E+ IV+D C Y +
Sbjct: 245 PLRWDPEKP---TRFGVIPRRGGKSDVRWFEAPPCFVFHTANAWEE-GGEIVLDACRYDD 300
Query: 267 PAMLDCMYREALKNIHSTPRYAQMFRARPLRFRLDLASPRTAPTGKVRPSVICDVGCETP 326
P LD Y L N+ + R+R R+RLDL + V V+ D CE P
Sbjct: 301 PDFLDPFY---LDNLRPDAFADKKPRSRLTRWRLDLKTGG-----DVTEEVLLDRPCEFP 352
Query: 327 RMNGQHQGRSYTYFYAISADIDRDNPG---TLIKVNVQNNTCKSWSQKD-VYPSEPVFVA 382
R+N ++ GR Y Y Y +AD G L+KV+++ + WS YP EP+FV
Sbjct: 353 RINPRYVGRKYRYVYMAAADPRPPGSGPFDGLVKVDLETGEVQVWSFGPGCYPGEPIFVP 412
Query: 383 TPNARKEDEGVLLSVLLWSHHPTRVS-LLVLNARTMQE--LGRVNFTTPTPVPKCLHGWY 439
P A ED+G LLSV+ T S LL+L+A+ + E + RV P VP HG +
Sbjct: 413 RPGAADEDDGWLLSVVYDED--TGRSELLILDAKDLTEGPVARVEL--PHRVPYGFHGTW 468
Query: 440 F 440
Sbjct: 469 V 469
>gnl|CDD|226196 COG3670, COG3670, Lignostilbene-alpha,beta-dioxygenase and related
enzymes [Secondary metabolites biosynthesis, transport,
and catabolism].
Length = 490
Score = 172 bits (437), Expect = 2e-48
Identities = 127/472 (26%), Positives = 197/472 (41%), Gaps = 61/472 (12%)
Query: 13 TVEGVIPSWIDGVLIRNGPGSWNVGEESFDHLFDCSGLLHRFKISSGL-VTYQCKFIKSE 71
VEG IP+ +DG L RNGP + G + H FD G++H G TY+ +F++++
Sbjct: 40 DVEGRIPADLDGTLYRNGPNPLHRGGIATYHWFDGDGMIHAVAFRDGGRATYRNRFVRTQ 99
Query: 72 SYIKNHAARRIVVTGFGTRFVPDPCASIFQRIATLFKPGSDNTLVSVYPIQDQVYALGDS 131
Y+ + A + + G G P K + NT V ++ D++ AL +
Sbjct: 100 GYLAENEAGKPLWGGLGE---TQPPGVRPHSRTGDLKNAA-NTSVIMHG--DELLALWEG 153
Query: 132 NYMHRIDPATLDTLGKIDLAGDVTILHQTSHPLTTSD-GETFNLGVT----------LRP 180
+R+DP TL+TLGK D GD ++HP D GE FN G + +
Sbjct: 154 GSPYRLDPDTLETLGKEDFGGDPLGGPFSAHPKVDPDTGELFNFGYSFALPYLTYYVVDA 213
Query: 181 TG----------------------PRYCILQLNDAF--SYPDLSHPPPPPPSLRFRDDID 216
G Y I P L P ++R+R ++
Sbjct: 214 DGELRRTVDIPLPGPPMMHDFAITENYLIFFDLPVTFDPVPRLLGRPADGHAMRWRPEL- 272
Query: 217 MTSTIFHVLDKTNGSVVHRFQADSFFYLHIINAYEDTNDGIVVDICCYRNPAMLDCMYRE 276
T VL + S + F+A+ F H +NAYE+ ++ ++VD Y + + +
Sbjct: 273 --PTRILVLPREGDSEIRWFEAEPGFVFHFLNAYEEGDEVVLVDFLRYDDFSQTL----D 326
Query: 277 ALKNIHSTPRYAQMFRARPLRFRLDLASPRTAPTGKVRPSVICDVGCETPRMNGQHQGRS 336
L + + R R+ L+L TGKV + D CE PR+N ++ G+
Sbjct: 327 TLGEGPGG-DFRTLAPPRLHRWTLNLK------TGKVAEEQLDDRACEFPRINPRYVGQP 379
Query: 337 YTYFYAISADIDRDNP---GTLIKVNVQNNTCKSWS-QKDVYPSEPVFVATPNARKEDEG 392
Y Y Y A TL K +++ T + +S Y SEPVFV P + ED+G
Sbjct: 380 YRYTYMSGARPGTFLFQGLQTLAKHDLETGTSQVYSFGPRGYGSEPVFVPRPGSSAEDDG 439
Query: 393 VLLSVLLWSHHPTRVSLLVLNARTMQELGRVNFTTPTPVPKCLHGWYFPHER 444
LL+ L++ LLV +A+ + P VP HG + P E
Sbjct: 440 WLLT-LVYDGDRHASELLVFDAQRVTAEPIARLALPQRVPYGFHGNWVPTEE 490
>gnl|CDD|215145 PLN02258, PLN02258, 9-cis-epoxycarotenoid dioxygenase NCED.
Length = 590
Score = 53.9 bits (130), Expect = 9e-08
Identities = 27/69 (39%), Positives = 39/69 (56%), Gaps = 7/69 (10%)
Query: 7 DQPVQG--TVEGVIPSWIDGVLIRNGPGSWNVGEE--SFDHLFDCSGLLHRFKISSGLVT 62
+QPV+ V G IP IDGV +RNG N E + HLFD G++H +I +G +
Sbjct: 124 EQPVRHNLPVTGRIPDCIDGVYVRNGA---NPLFEPVAGHHLFDGDGMVHAVRIGNGSAS 180
Query: 63 YQCKFIKSE 71
Y C+F ++
Sbjct: 181 YACRFTETN 189
Score = 46.2 bits (110), Expect = 2e-05
Identities = 56/225 (24%), Positives = 84/225 (37%), Gaps = 33/225 (14%)
Query: 222 FHVLDK--TNGSVVHRFQADSFFYLHIINAYEDTNDGIVVDICCYRNPAMLDCMYREALK 279
F VL K T+ S + + F H+ NA+E+ VV I P D ++ E
Sbjct: 378 FGVLPKNATDASEIQWVEVPDCFCFHLWNAWEEPETDEVVVIGSCMTPP--DSIFNE--- 432
Query: 280 NIHSTPRYAQMFRARPLRFRLDLASPRTAPTGKVRPSVI---CDVGCETPRMNGQHQGRS 336
+ R+ RL+L TG+ I V E +N GR
Sbjct: 433 -------SDESLRSVLSEIRLNLR------TGESTRRPIISGEQVNLEAGMVNRNLLGRK 479
Query: 337 YTYFYAISADIDRDNPGTLIKVNVQNNTCKSWSQ-KDVYPSEPVFVA-TPNARKEDEGVL 394
Y Y A+ G KV++ K + + Y EP FV + ED+G +
Sbjct: 480 TRYAYLAIAEPWPKVSG-FAKVDLSTGEVKKYIYGEGRYGGEPFFVPRGSGSEAEDDGYI 538
Query: 395 LSVLLWSHHPTRVS--LLVLNARTMQELGRVNFTTPTPVPKCLHG 437
L+ + H + L V+NA ++ V P+ VP HG
Sbjct: 539 LAFV---HDEEKGKSELQVVNAVNLELEATV--KLPSRVPYGFHG 578
>gnl|CDD|215523 PLN02969, PLN02969, 9-cis-epoxycarotenoid dioxygenase.
Length = 610
Score = 44.0 bits (104), Expect = 1e-04
Identities = 52/225 (23%), Positives = 92/225 (40%), Gaps = 31/225 (13%)
Query: 244 LHIINAYEDTNDG----IVVDIC-CYRNPAMLDCMYREALKNIHSTPRYAQMFRARPLRF 298
+H+ NAYE+ +D I + C M+ +N P + + L
Sbjct: 389 IHVGNAYEERDDRGNLRIQLHASACSYQWFSFHRMFGYDWQNKKLDPSVMNNAKGKELLP 448
Query: 299 RLDLASPRTAPTGKVRPSVICDV---------GCETPRMNGQHQGRSYTYFYAISADIDR 349
L S TG R CDV + P +N G+ Y YA +A R
Sbjct: 449 HLVQVSIDLDRTGDCRS---CDVEPLSNQWEKPADFPVINPSFSGQKNEYTYAAAASGSR 505
Query: 350 DN----P-GTLIKVNVQNNTCKSWSQ-KDVYPSEPVFVATPNAR---KEDEGVLLSVLLW 400
P +++K++V + + +SWS + EPVFV +++ +ED+G +L V+ +
Sbjct: 506 KTLPHFPFDSVVKLDVPDGSARSWSTGARRFVGEPVFVPRKSSQGGGEEDDGYVL-VVEY 564
Query: 401 SHHPTRVSLLVLNARTMQELG----RVNFTTPTPVPKCLHGWYFP 441
+ R L++L+A+ + E ++ P HG++
Sbjct: 565 AVSDERCYLVILDAKRIGERDAVVAKLEVPKHLTFPMGFHGFWAD 609
Score = 34.4 bits (79), Expect = 0.14
Identities = 27/78 (34%), Positives = 36/78 (46%), Gaps = 4/78 (5%)
Query: 4 SEVDQPVQGT-VEGVIPS-WIDGVLIRNGPGSWNVGEESFDHLFDCSGLLHRFKISSG-- 59
SE PV+ VEG IPS + G GPG + S H D G L F I G
Sbjct: 69 SETKDPVRLRVVEGAIPSDFPSGTYYLAGPGLFTDDHGSTVHPLDGHGYLRAFHIDGGDR 128
Query: 60 LVTYQCKFIKSESYIKNH 77
V Y +++K+E+ + H
Sbjct: 129 PVQYSARYVKTEAKKEEH 146
>gnl|CDD|215271 PLN02491, PLN02491, carotenoid 9,10(9',10')-cleavage dioxygenase.
Length = 545
Score = 35.6 bits (82), Expect = 0.051
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 13 TVEGVIPSWIDGVLIRNGPGSWNVGEESFDHLFDCSGLLHRFKISSGLVTYQCKFIKS 70
V G +P ++G +R GP + H FD G++H +I G TY +++K+
Sbjct: 70 PVRGHLPECLNGEFVRVGPNPKFSPVAGY-HWFDGDGMIHGMRIKDGKATYVSRYVKT 126
>gnl|CDD|132648 TIGR03609, S_layer_CsaB, polysaccharide pyruvyl transferase CsaB.
The CsaB protein (cell surface anchoring B) of Bacillus
anthracis adds a pyruvoyl group to
peptidoglycan-associated polysaccharide. This addition
is required for proteins with an S-layer homology domain
(pfam00395) to bind. Within the larger group of proteins
described by pfam04230, this model represents a distinct
clade that nearly exactly follows the phylogenetic
distribution of the S-layer homology domain (pfam00395)
[Cell envelope, Surface structures, Protein fate,
Protein and peptide secretion and trafficking].
Length = 298
Score = 31.8 bits (73), Expect = 0.68
Identities = 11/50 (22%), Positives = 15/50 (30%), Gaps = 4/50 (8%)
Query: 138 DPATLDTL----GKIDLAGDVTILHQTSHPLTTSDGETFNLGVTLRPTGP 183
D A+ L +LA D L + V+LRP
Sbjct: 135 DAASYRLLKRLGIPAELAADPVWLLPPEPWPGGEPLPEPVIVVSLRPWPL 184
>gnl|CDD|237591 PRK14036, PRK14036, citrate synthase; Provisional.
Length = 377
Score = 30.7 bits (70), Expect = 1.4
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 71 ESYIKNHAARRIVVTGFGTRF--VPDPCASIFQRIA-TLFK 108
Y+ A + + GFG R V DP A+I Q++A LF
Sbjct: 241 RPYLDERLANKQKIMGFGHREYKVKDPRATILQKLAEELFA 281
>gnl|CDD|236499 PRK09404, sucA, 2-oxoglutarate dehydrogenase E1 component;
Reviewed.
Length = 924
Score = 30.5 bits (70), Expect = 2.4
Identities = 24/98 (24%), Positives = 32/98 (32%), Gaps = 56/98 (57%)
Query: 221 IFHVLDKTNG----SVVH----------RFQADSFFYLHIINAYEDTNDGIVVDICCYR- 265
IFHV NG +VV +F+ D +V+D+ CYR
Sbjct: 412 IFHV----NGDDPEAVVFATRLALEYRQKFKKD-----------------VVIDLVCYRR 450
Query: 266 ------------NPAMLDCMYREALKNIHSTPR--YAQ 289
P MY+ +K H T R YA
Sbjct: 451 HGHNEGDEPSFTQPL----MYK-KIKK-HPTTRELYAD 482
>gnl|CDD|107157 PHA02244, PHA02244, ATPase-like protein.
Length = 383
Score = 30.1 bits (67), Expect = 2.7
Identities = 21/75 (28%), Positives = 28/75 (37%), Gaps = 9/75 (12%)
Query: 129 GDSNYMHR--IDPATLDTLGKIDLAGDVTILHQTSHPLTTSDGETFNLGVTLRPTGPRYC 186
D Y+ R ID ATLD I+ D I H ++ D + N LR
Sbjct: 235 ADHIYVARNKIDGATLDRFAPIEFDYDEKIEHL----ISNGDEDLVNFVALLRHEMAEK- 289
Query: 187 ILQLNDAFSYPDLSH 201
L+ FS + H
Sbjct: 290 --GLDHVFSMRAIIH 302
>gnl|CDD|218575 pfam05390, KRE9, Yeast cell wall synthesis protein KRE9/KNH1. This
family contains several KRE9 and KNH1 proteins which are
involved in encoding cell surface O glycoproteins, which
are required for beta -1,6-glucan synthesis in yeast.
Length = 107
Score = 28.5 bits (63), Expect = 3.0
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 423 VNFTTPTPVPKCLHGWYFPHER 444
VN+ TP P+P GWY P +R
Sbjct: 72 VNYATPAPMPSDNGGWYNPSKR 93
>gnl|CDD|239185 cd02784, MopB_CT_PHLH, The MopB_CT_PHLH CD includes a group of
related uncharacterized putative hydrogenase-like
homologs (PHLH) of molybdopterin binding proteins. This
CD is of the PHLH region homologous to the conserved
molybdopterin-binding C-terminal (MopB_CT) region
present in many, but not all, MopB homologs.
Length = 137
Score = 28.6 bits (64), Expect = 3.0
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 162 HPLTTSDGETFNLGVTLRPTGPRYCILQ 189
+P TSD F GV + TG +Y ++
Sbjct: 105 YPFRTSDVPDFVAGVEVTKTGRKYPLVT 132
>gnl|CDD|99865 cd06112, citrate_synt_like_1_1, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism.
Length = 373
Score = 28.5 bits (64), Expect = 7.1
Identities = 12/34 (35%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 73 YIKNHAARRIVVTGFGTRF--VPDPCASIFQRIA 104
Y+ A + + GFG R DP A+I Q++A
Sbjct: 242 YLDKKLANKQKIWGFGHRVYKTKDPRATILQKLA 275
>gnl|CDD|183583 PRK12544, PRK12544, RNA polymerase sigma factor; Provisional.
Length = 206
Score = 28.2 bits (63), Expect = 7.6
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 36 VGEESFDHLFDCSGLLHR 53
EE F+ LFD SG +
Sbjct: 102 EEEEDFEELFDESGHWQK 119
>gnl|CDD|217128 pfam02592, DUF165, Uncharacterized ACR, YhhQ family COG1738.
Length = 143
Score = 27.5 bits (62), Expect = 7.8
Identities = 16/50 (32%), Positives = 22/50 (44%), Gaps = 5/50 (10%)
Query: 70 SESYIKNHAARRIVVTGFGTRFVPDPCASIFQRIATLFKPGSDNTLVSVY 119
+E Y K AARR V+ GF + + I L P +D SV+
Sbjct: 18 TEVYGKK-AARRAVLLGFLANIL----FLLLLLIVLLLPPPADEAFESVF 62
>gnl|CDD|235773 PRK06291, PRK06291, aspartate kinase; Provisional.
Length = 465
Score = 28.4 bits (64), Expect = 9.9
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 68 IKSESYIKNHAARRIVVTGFGTRFVPDPCASIFQRIA 104
+K+ + IKN A I ++G G VP A IF +A
Sbjct: 312 VKAVTLIKNVAL--INISGAGMVGVPGTAARIFSALA 346
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
0.321 0.138 0.435
Gapped
Lambda K H
0.267 0.0550 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 23,153,412
Number of extensions: 2225387
Number of successful extensions: 1705
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1689
Number of HSP's successfully gapped: 21
Length of query: 447
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 347
Effective length of database: 6,502,202
Effective search space: 2256264094
Effective search space used: 2256264094
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 (21.9 bits)
S2: 61 (27.7 bits)