RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy292
(452 letters)
>gnl|CDD|227403 COG5071, RPN5, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 439
Score = 353 bits (906), Expect = e-118
Identities = 186/436 (42%), Positives = 274/436 (62%), Gaps = 4/436 (0%)
Query: 12 VKMEVDYAPTCDEKIPAAIKMAAEGKFHDAIDSLLALEKQTRTGSDMVSTGRILVAIVQI 71
K EVDY+ E + + ++ LL EK+ R SD + ++L+ I +
Sbjct: 3 QKPEVDYSEKFAELQKS-LNNLNTIDIDANLEKLLIFEKKVRQASDTSTNTKVLIYIADL 61
Query: 72 CFEAKNWTALNEHITMLTKRRSQLKQAVVKMIQECVTYVDKTPSKEIKVKLIETLRTVTE 131
F A ++ LNE + L K+ QLKQ++ MIQ + Y+ + K+ LIETLRTVTE
Sbjct: 62 LFSAGDFQGLNEQLVSLFKKHGQLKQSITSMIQHVMEYLKGIDDLKTKINLIETLRTVTE 121
Query: 132 GKIYVEVERARLTHILAKMKEDEGDVTEAANIIQELQVETYGSMEKKEKVTLILEQMRLC 191
GKI+VEVERARLT +L+++KE++GD+ A +I+ VETYGS + EKV ILEQ+RL
Sbjct: 122 GKIFVEVERARLTQLLSQIKEEQGDIKSAQDILCNEPVETYGSFDLSEKVAFILEQVRLF 181
Query: 192 LAKKDYIRTQIISKKINTKFFDDEKDDVQELKLKYYRLMIELDQHEGSYLATCKHYRAIL 251
L + DY +KKIN KFF EK+DVQ LKLKYY L + + H+ +YL CK+YRA+
Sbjct: 182 LLRSDYYMASTYTKKINKKFF--EKEDVQSLKLKYYELKVRIGLHDRAYLDVCKYYRAVY 239
Query: 252 TTPCIQSDPIQRHAVLQNVVLYLMLAPYDNEQSDLTHRVLEDKLLNEIPLYKGLLQWFTN 311
T +Q DP + VL NVV + +L PYDNEQ+DL H++ D LN +PL + L++ F
Sbjct: 240 DTAVVQEDPAKWKEVLSNVVCFALLTPYDNEQADLLHKINADHKLNSLPLLQQLVKCFIV 299
Query: 312 PELIKWSGLRQLYEEELFKTSVFNQSTEEGQKCFKMLKHRVVEHNIRVMAKYYTRITLQR 371
EL++W + ++Y L +++VF + E+G+K + L+ RV+EHNIRV+A YY+RI R
Sbjct: 300 NELMRWPKVAEIYGSAL-RSNVFAFNDEKGEKRWSDLRKRVIEHNIRVIANYYSRIHCSR 358
Query: 372 MCDLLGLPIEETEEFLSSMVVSKTITAKIDRPAGIINFARNKDPGEILNEWSASLNELMK 431
+ LL + ETE+F+S +V AKI+RPA II+F ++++ E LNEW +++ EL+
Sbjct: 359 LGVLLDMSPSETEQFISDLVNKGHFYAKINRPAQIISFEKSQNVQEQLNEWGSNVTELLG 418
Query: 432 LVNNTTHLINKEQMIH 447
+ HLI KE+M++
Sbjct: 419 KLEKVRHLIIKEEMMN 434
>gnl|CDD|216479 pfam01399, PCI, PCI domain. This domain has also been called the
PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15).
Length = 100
Score = 69.9 bits (172), Expect = 6e-15
Identities = 32/108 (29%), Positives = 57/108 (52%), Gaps = 8/108 (7%)
Query: 302 YKGLLQWFTNPELIKWSGLRQLYEEELFKTSVFNQSTEEGQKCFKMLKHRVVEHNIRVMA 361
Y+ LL+ F + +L + + E+EL + + + L+ ++ E N+R +A
Sbjct: 1 YRDLLRAFYSGDLSDFEEILADNEDELLDDGLA--------ELLEDLRRKIRELNLRRLA 52
Query: 362 KYYTRITLQRMCDLLGLPIEETEEFLSSMVVSKTITAKIDRPAGIINF 409
K Y+ I+L + LLGL ++E E+ LS ++ I KID+ GI+ F
Sbjct: 53 KPYSSISLSDLAKLLGLSVDEVEKILSKLIRDGRIRGKIDQVNGIVVF 100
>gnl|CDD|214803 smart00753, PAM, PCI/PINT associated module.
Length = 88
Score = 66.5 bits (163), Expect = 7e-14
Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 1/83 (1%)
Query: 348 LKHRVVEHNIRVMAKYYTRITLQRMCDLLGLPIEETEEFLSSMVVSKTITAKIDRPAGII 407
L+ ++ N+ +++ Y+ I+L + LLGL + E E+ +S + I+AKID+ GI+
Sbjct: 6 LQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIV 65
Query: 408 NFARNKDP-GEILNEWSASLNEL 429
F E L +++ +L +L
Sbjct: 66 EFEEVDPRRSEPLAQFAETLKKL 88
>gnl|CDD|214509 smart00088, PINT, motif in proteasome subunits, Int-6, Nip-1 and
TRIP-15. Also called the PCI (Proteasome, COP9,
Initiation factor 3) domain. Unknown function.
Length = 88
Score = 66.5 bits (163), Expect = 7e-14
Identities = 24/83 (28%), Positives = 46/83 (55%), Gaps = 1/83 (1%)
Query: 348 LKHRVVEHNIRVMAKYYTRITLQRMCDLLGLPIEETEEFLSSMVVSKTITAKIDRPAGII 407
L+ ++ N+ +++ Y+ I+L + LLGL + E E+ +S + I+AKID+ GI+
Sbjct: 6 LQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVPEVEKLVSKAIRDGEISAKIDQVNGIV 65
Query: 408 NFARNKDP-GEILNEWSASLNEL 429
F E L +++ +L +L
Sbjct: 66 EFEEVDPRRSEPLAQFAETLKKL 88
>gnl|CDD|143402 cd07083, ALDH_P5CDH, ALDH subfamily NAD+-dependent
delta(1)-pyrroline-5-carboxylate dehydrogenase-like.
ALDH subfamily of the NAD+-dependent,
delta(1)-pyrroline-5-carboxylate dehydrogenases (P5CDH,
EC=1.5.1.12). The proline catabolic enzymes, proline
dehydrogenase and P5CDH catalyze the two-step oxidation
of proline to glutamate. P5CDH catalyzes the oxidation
of glutamate semialdehyde, utilizing NAD+ as the
electron acceptor. In some bacteria, the two enzymes are
fused into the bifunctional flavoenzyme, proline
utilization A (PutA). These enzymes play important roles
in cellular redox control, superoxide generation, and
apoptosis. In certain prokaryotes such as Escherichia
coli, PutA is also a transcriptional repressor of the
proline utilization genes. Monofunctional enzyme
sequences such as those seen in the Bacillus RocA P5CDH
are also present in this subfamily as well as the human
ALDH4A1 P5CDH and the Drosophila Aldh17 P5CDH.
Length = 500
Score = 31.4 bits (71), Expect = 1.1
Identities = 22/106 (20%), Positives = 31/106 (29%), Gaps = 18/106 (16%)
Query: 332 SVFNQSTEEGQKCFKMLKHRVVEHNIRVMAKYYTRITLQRMCDLLGLPIEETEEFLSSMV 391
+ + E FK K E R+ L + DLL E +
Sbjct: 55 AEAEAALEAAWAAFKTWKDWPQEDRARL---------LLKAADLLRRRRRE-LIATLTYE 104
Query: 392 VSKTITAKIDRPAGIINFARN--------KDPGEILNEWSASLNEL 429
V K ID A I+F R + P + + NE
Sbjct: 105 VGKNWVEAIDDVAEAIDFIRYYARAALRLRYPAVEVVPYPGEDNES 150
>gnl|CDD|203455 pfam06456, Arfaptin, Arfaptin-like domain. Arfaptin interacts with
ARF1, a small GTPase involved in vesicle budding at the
Golgi complex and immature secretory granules. The
structure of arfaptin shows that upon binding to a small
GTPase, arfaptin forms an elongated, crescent-shaped
dimer of three-helix coiled-coils. The N-terminal region
of ICA69 is similar to arfaptin.
Length = 229
Score = 30.4 bits (69), Expect = 1.6
Identities = 31/172 (18%), Positives = 48/172 (27%), Gaps = 45/172 (26%)
Query: 34 AEGKFHDAIDSLLALEKQTRTGSDMVSTGRILVAIVQICFEAKNWTALNEHITMLTKRRS 93
+ + D L EKQ G + G L K+
Sbjct: 69 TQKELGDFFKDLGKHEKQQAAGEAFTAFGETH--------------------RFLAKQGL 108
Query: 94 QLKQAVVKMIQECVTYVDKTPSKEIKVKLIETLRTVTEGKIYVEVERARLTHILAKMKED 153
L + + I T+V+K +TL T+ E AR + +
Sbjct: 109 ALLVPLNRFISSVNTFVNKAIP--------DTLLTIK------RYEDARTEYRAYLLWMK 154
Query: 154 EGDVTEAANIIQELQVETYGSMEKKEKVTLILEQMRLCLAKKDYIRTQIISK 205
E EL + M K + AK D +RT ++ K
Sbjct: 155 EMS--------DELDPDVAKQMPKFRVAQ---GNYQEAKAKFDKLRTDVLQK 195
>gnl|CDD|239472 cd03377, TPP_PFOR_PNO, Thiamine pyrophosphate (TPP family),
PFOR_PNO subfamily, TPP-binding module; composed of
proteins similar to the single subunit pyruvate
ferredoxin oxidoreductase (PFOR) of Desulfovibrio
Africanus, present in bacteria and amitochondriate
eukaryotes. This subfamily also includes proteins
characterized as pyruvate NADP+ oxidoreductase (PNO).
These enzymes are dependent on TPP and a divalent metal
cation as cofactors. PFOR and PNO catalyze the oxidative
decarboxylation of pyruvate to form acetyl-CoA, a
crucial step in many metabolic pathways. Archaea,
anaerobic bacteria and eukaryotes that lack mitochondria
(and therefore pyruvate dehydrogenase) use PFOR to
oxidatively decarboxylate pyruvate, with ferredoxin or
flavodoxin as the electron acceptor. The PFOR from
cyanobacterium Anabaena (NifJ) is required for the
transfer of electrons from pyruvate to flavodoxin, which
reduces nitrogenase. The facultative anaerobic
mitochondrion of the photosynthetic protist Euglena
gracilis oxidizes pyruvate with PNO.
Length = 365
Score = 30.6 bits (70), Expect = 1.7
Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 2/73 (2%)
Query: 136 VEVERARLTHILAKMKEDEGD--VTEAANIIQELQVETYGSMEKKEKVTLILEQMRLCLA 193
V+ R R ++ K+ E GD + N + + S E+ K+ +L + LA
Sbjct: 80 VDQRRERARELVQKLIEKIGDEELKTLLNAWLATEDDIEESRERVAKLKPLLAAEKDELA 139
Query: 194 KKDYIRTQIISKK 206
K+ + KK
Sbjct: 140 KELLSLADYLVKK 152
>gnl|CDD|227488 COG5159, RPN6, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 421
Score = 29.5 bits (66), Expect = 3.8
Identities = 22/107 (20%), Positives = 45/107 (42%), Gaps = 7/107 (6%)
Query: 299 IPLYKGLLQWFTNPELIKWSGLRQLYEEELFKTSVFNQSTEEGQKCFKMLKHRVVEHNIR 358
I + + F N L +S Y +EL + S + L ++E N+
Sbjct: 283 IRAMLAVAEAFGNRSLKDFSDALAQYSDELHQDSFIRSH-------LQYLYDVLLEKNLV 335
Query: 359 VMAKYYTRITLQRMCDLLGLPIEETEEFLSSMVVSKTITAKIDRPAG 405
+ + ++ + + + D++GL + E LS M++ K +D+ G
Sbjct: 336 KIIEPFSVVEISHIADVIGLDTNQVEGKLSQMILDKIFYGTLDQGDG 382
>gnl|CDD|188649 cd09817, linoleate_diol_synthase_like, Linoleate (8R)-dioxygenase
and related enzymes. These fungal enzymes, related to
animal heme peroxidases, catalyze the oxygenation of
linoleate and similar targets. Linoleate
(8R)-dioxygenase, also called linoleate:oxygen
7S,8S-oxidoreductase, generates
(9Z,12Z)-(7S,8S)-dihydroxyoctadeca-9,12-dienoate as a
product. Other members are 5,8-linoleate dioxygenase
(LDS, ppoA) and linoleate 10R-dioxygenase (ppoC),
involved in the biosynthesis of oxylipins.
Length = 550
Score = 29.6 bits (67), Expect = 3.8
Identities = 31/145 (21%), Positives = 52/145 (35%), Gaps = 33/145 (22%)
Query: 326 EELFKTSVFNQSTEEGQKCFKMLKHRVVEHNIRVMAKYYTRIT---LQRMCDLLGLPIEE 382
E+LF+ S+F K ++ ++ + ++ I QR GL
Sbjct: 292 EDLFE-SLFGG---------KSPDEVTLKEFMQALGRFEALIPKDPSQR--TFGGLKRGP 339
Query: 383 TEEFLSSMVVSKTITAKIDRPAGIINFARNKDPG-----EILN-----EWS-ASLNELMK 431
F +V + + I+ PAG F P EIL EW+ A+LNE K
Sbjct: 340 DGRFRDEDLV-RILKDSIEDPAG--AFGARNVPASLKVIEILGILQAREWNVATLNEFRK 396
Query: 432 LVNNTTHL----INKEQMIHQRVAA 452
+ IN + + + +
Sbjct: 397 FFGLKPYETFEDINSDPEVAEALEL 421
>gnl|CDD|182614 PRK10645, PRK10645, divalent-cation tolerance protein CutA;
Provisional.
Length = 112
Score = 27.8 bits (62), Expect = 4.3
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 8/71 (11%)
Query: 269 NVVLYLMLAPYDNEQSDLTHRVLEDKLLNEIPLYKGLLQWFTNPELIKWSG-LRQLYE-E 326
+ V+ L AP + DL +VL +KL + L G L W G L Q YE +
Sbjct: 10 DAVVVLCTAPDEATAQDLAAKVLAEKLAACVTLLPGATS------LYYWEGKLEQEYEVQ 63
Query: 327 ELFKTSVFNQS 337
L KT+V +Q
Sbjct: 64 MLLKTTVSHQQ 74
>gnl|CDD|235029 PRK02308, uvsE, putative UV damage endonuclease; Provisional.
Length = 303
Score = 29.1 bits (66), Expect = 4.6
Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 21/76 (27%)
Query: 287 THRVLEDKLLNEIPLYK---GLLQWFTNPELIKWSGLRQLYEEELFKTSVFNQSTEEGQK 343
R+L+ + + I L++ L+ T+PEL W + EE
Sbjct: 50 LLRILKYNIAHGIGLFRLSSSLIPLATHPELEGWDYIEPFKEE----------------- 92
Query: 344 CFKMLKHRVVEHNIRV 359
+ + + EHNIR+
Sbjct: 93 -LREIGEFIKEHNIRL 107
>gnl|CDD|240011 cd04640, CBS_pair_27, The CBS domain, named after human CBS, is a
small domain originally identified in cystathionine
beta-synthase and is subsequently found in a wide range
of different proteins. CBS domains usually occur in
tandem repeats. They associate to form a so-called
Bateman domain or a CBS pair based on crystallographic
studies in bacteria. The CBS pair was used as a basis
for this cd hierarchy since the human CBS proteins can
adopt the typical core structure and form an
intramolecular CBS pair. The interface between the two
CBS domains forms a cleft that is a potential ligand
binding site. The CBS pair coexists with a variety of
other functional domains and this has been used to help
in its classification here. It has been proposed that
the CBS domain may play a regulatory role, although its
exact function is unknown. Mutations of conserved
residues within this domain are associated with a
variety of human hereditary diseases, including
congenital myotonia, idiopathic generalized epilepsy,
hypercalciuric nephrolithiasis, and classic Bartter
syndrome (CLC chloride channel family members),
Wolff-Parkinson-White syndrome (gamma 2 subunit of
AMP-activated protein kinase), retinitis pigmentosa (IMP
dehydrogenase-1), and homocystinuria (cystathionine
beta-synthase).
Length = 126
Score = 27.6 bits (62), Expect = 5.8
Identities = 12/60 (20%), Positives = 23/60 (38%), Gaps = 5/60 (8%)
Query: 95 LKQAVVKMIQECVTYVDKTPSKEIKVKLIETLRTVTEGKIYVEVERARLTHILAKMKEDE 154
L + +K IQE E+ V + T + + E+E A + ++ +K
Sbjct: 46 LGEEPIKRIQE-----GGISRSELTVADVMTPKEDLKALDLEELENASVGDVVETLKASG 100
>gnl|CDD|235505 PRK05563, PRK05563, DNA polymerase III subunits gamma and tau;
Validated.
Length = 559
Score = 29.1 bits (66), Expect = 6.0
Identities = 26/104 (25%), Positives = 48/104 (46%), Gaps = 7/104 (6%)
Query: 41 AIDSLLALEKQTRTGSDMVSTGRIL--VAIVQICFEAKNWTALNEHITMLTKRRSQLKQA 98
ID L ++Q + + RI VA+V++C +A + + +L +R QL+Q
Sbjct: 329 MIDILNDAQQQIKWTNQP----RIYLEVALVKLCEQAAASPEYDTELEVLLQRVEQLEQE 384
Query: 99 VVKMIQECVTYVDKT-PSKEIKVKLIETLRTVTEGKIYVEVERA 141
+ ++ + V + K+ K K + V GKIY ++ A
Sbjct: 385 LKQLKAQPVGVAPEQKEKKKEKKKNKKKKYKVPRGKIYKVLKEA 428
>gnl|CDD|234606 PRK00061, ribH, 6,7-dimethyl-8-ribityllumazine synthase;
Provisional.
Length = 154
Score = 27.4 bits (62), Expect = 9.5
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 26 IPAAIKMAAEGKFHDAI 42
IP A K AE +DA+
Sbjct: 59 IPLAAKKLAESGKYDAV 75
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
0.319 0.133 0.376
Gapped
Lambda K H
0.267 0.0749 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,795,255
Number of extensions: 2242799
Number of successful extensions: 2146
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2142
Number of HSP's successfully gapped: 39
Length of query: 452
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 352
Effective length of database: 6,502,202
Effective search space: 2288775104
Effective search space used: 2288775104
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: 61 (27.2 bits)