RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9642
(437 letters)
>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 = 65.7 bits (161), Expect = 2e-13
Identities = 25/101 (24%), Positives = 53/101 (52%), Gaps = 1/101 (0%)
Query: 265 YLDLVSVYTNNNSTELQHLLLKYADVFSRDENTGLTKQIVASLYKNNIKRLTKTFLTLSL 324
Y DL+ + + + ++ + +L D D L + + + + N++RL K + ++SL
Sbjct: 1 YRDLLRAFYSGDLSDFEEILADNEDELLDDGLAELLEDLRRKIRELNLRRLAKPYSSISL 60
Query: 325 ADVASRVQLGTPVQAEIYILKMISQNEIYATINKKDGMVVF 365
+D+A + L + + E + K+I I I++ +G+VVF
Sbjct: 61 SDLAKLLGL-SVDEVEKILSKLIRDGRIRGKIDQVNGIVVF 100
>gnl|CDD|214803 smart00753, PAM, PCI/PINT associated module.
Length = 88
Score = 54.9 bits (133), Expect = 8e-10
Identities = 23/90 (25%), Positives = 47/90 (52%), Gaps = 3/90 (3%)
Query: 299 LTKQIVASLYKNNIKRLTKTFLTLSLADVASRVQLGTPVQAEIYILKMISQNEIYATINK 358
L +++ + N+ +L++ + ++SL+D+A + L P + E + K I EI A I++
Sbjct: 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVP-EVEKLVSKAIRDGEISAKIDQ 60
Query: 359 KDGMVVFNDNPQRFNNPLTFAQIESNIRAC 388
+G+V F + R + PL Q ++
Sbjct: 61 VNGIVEFEEVDPRRSEPLA--QFAETLKKL 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 = 54.9 bits (133), Expect = 8e-10
Identities = 23/90 (25%), Positives = 47/90 (52%), Gaps = 3/90 (3%)
Query: 299 LTKQIVASLYKNNIKRLTKTFLTLSLADVASRVQLGTPVQAEIYILKMISQNEIYATINK 358
L +++ + N+ +L++ + ++SL+D+A + L P + E + K I EI A I++
Sbjct: 2 LVERLQRKIRLTNLLQLSEPYSSISLSDLAKLLGLSVP-EVEKLVSKAIRDGEISAKIDQ 60
Query: 359 KDGMVVFNDNPQRFNNPLTFAQIESNIRAC 388
+G+V F + R + PL Q ++
Sbjct: 61 VNGIVEFEEVDPRRSEPLA--QFAETLKKL 88
>gnl|CDD|225267 COG2403, COG2403, Predicted GTPase [General function prediction
only].
Length = 449
Score = 31.7 bits (72), Expect = 0.90
Identities = 17/66 (25%), Positives = 25/66 (37%), Gaps = 4/66 (6%)
Query: 193 GGMIYLALKNYERALYFFEVIITTPALAVSHIMLEGYKKYLLIY--LIVYGKAPNLPKNV 250
GGM Y A Y A E++ P ++ E Y+KY L G AP +
Sbjct: 334 GGMPYGA--GYLAAKKGGEIVGVDPRPYNRGVIREDYEKYPHDADILPTEGYAPAQDVAL 391
Query: 251 SQAICR 256
+ +
Sbjct: 392 EETLNA 397
>gnl|CDD|217408 pfam03177, Nucleoporin_C, Non-repetitive/WGA-negative nucleoporin
C-terminal. This is the C-termainl half of a family of
nucleoporin proteins. Nucleoporins are the main
components of the nuclear pore complex in eukaryotic
cells, and mediate bidirectional nucleocytoplasmic
transport, especially of mRNA and proteins. Two
nucleoporin classes are known: one is characterized by
the FG repeat pfam03093; the other is represented by
this family, and lacks any repeats. RNA undergoing
nuclear export first encounters the basket of the
nuclear pore and many nucleoporins are accessible on the
basket side of the pore.
Length = 559
Score = 31.4 bits (71), Expect = 1.2
Identities = 27/130 (20%), Positives = 46/130 (35%), Gaps = 18/130 (13%)
Query: 62 LSAKLTLLSSSNTGSEYQEELFSQIQEFLNMCNPDQIRHAGDLYAELSHQYTKTVMDLKT 121
L KL L+S N G+ EL S+I+E L + + DL +L + +
Sbjct: 401 LLRKLAALASENDGTPILSELLSEIEELL-----EVAKIQKDLLEQLLEADQRISDEKAA 455
Query: 122 PQRGIPLIQTAIKKIQTSDSQLT-------SLHSDLCQLCLLAQNFKPALEFLDVDITTI 174
+ + S ++L DL L + F AL L + I +
Sbjct: 456 AAL------AKLDGLILSLTKLFNDYALPAEYLIDLLTLMDPSTEFYLALRLLCLLIFAL 509
Query: 175 ANEGPQFDTK 184
A+ + +
Sbjct: 510 ADYRDKDLIR 519
>gnl|CDD|237526 PRK13837, PRK13837, two-component VirA-like sensor kinase;
Provisional.
Length = 828
Score = 29.6 bits (67), Expect = 3.7
Identities = 25/114 (21%), Positives = 41/114 (35%), Gaps = 28/114 (24%)
Query: 43 DNVLETLETFQHSLGILAILSAKLTLLSSSNTGSEYQEELFSQIQEFLNMCNPD---QIR 99
N L Q+SL LS+ L S++ + EL S + F +P +IR
Sbjct: 115 QNAL-----LQNSLAYFNSLSSALPRSDSTDAPARAASELASAMLRFSLDPSPALAAEIR 169
Query: 100 H------------AGDLYAELSHQYTKTVMDLKTPQRGIPLIQTAIKKIQTSDS 141
+ A L H M L+ +P + ++ +Q SD+
Sbjct: 170 RRLDRLAQRAGSDPASVRALLRH----GRMILRL----LPRVDDTVRVLQASDT 215
>gnl|CDD|191825 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry
includes outlying Tetratricopeptide-like repeats (TPR)
that are not matched by pfam00515.
Length = 34
Score = 25.6 bits (57), Expect = 5.4
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 194 GMIYLALKNYERALYFFE 211
G+ Y L +YE AL +E
Sbjct: 8 GLAYYKLGDYEEALEAYE 25
>gnl|CDD|215402 PLN02754, PLN02754, chorismate synthase.
Length = 413
Score = 29.0 bits (65), Expect = 5.5
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 343 ILKMISQNEIYATINKKDGMVVFNDNPQRFNNPLTFAQIESNIRAC 388
ILK + EI A +++ +V+ D + LT QIESNI C
Sbjct: 167 ILKQFAGTEILAYVSQVHDVVLPEDLVD--HETLTLEQIESNIVRC 210
>gnl|CDD|193296 pfam12821, DUF3815, Protein of unknown function (DUF3815). This
family of membrane proteins is functionally
uncharacterized.
Length = 130
Score = 27.8 bits (63), Expect = 5.5
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 192 YGGMIYLALKNYERAL-YFFEVIITTPALAV 221
Y M+YL NY AL E + A+A+
Sbjct: 92 YNTMLYLVQGNYSLALSNGLETLFIAGAIAL 122
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 25.5 bits (57), Expect = 7.0
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 194 GMIYLALKNYERALYFFE 211
G YL L Y+ AL ++E
Sbjct: 8 GNAYLKLGKYDEALEYYE 25
>gnl|CDD|238103 cd00176, SPEC, Spectrin repeats, found in several proteins involved
in cytoskeletal structure; family members include
spectrin, alpha-actinin and dystrophin; the spectrin
repeat forms a three helix bundle with the second helix
interrupted by proline in some sequences; the repeats
are independent folding units; tandem repeats are found
in differing numbers and arrange in an antiparallel
manner to form dimers; the repeats are defined by a
characteristic tryptophan (W) residue in helix A and a
leucine (L) at the carboxyl end of helix C and separated
by a linker of 5 residues; two copies of the repeat are
present here.
Length = 213
Score = 28.2 bits (63), Expect = 8.2
Identities = 23/125 (18%), Positives = 43/125 (34%), Gaps = 20/125 (16%)
Query: 5 LEQFVNNVRQLSAQGSFRELTEIIQKSMDVLTK-----------YGQHLDNVLETLETFQ 53
+E QL +G E IQ+ ++ L + Q L+ L+ + F+
Sbjct: 56 VEALNELGEQLIEEG--HPDAEEIQERLEELNQRWEELRELAEERRQRLEEALDLQQFFR 113
Query: 54 HSLGILAILSAKLTLLSSSNTGSEYQ--EELFSQIQEFLNMCNP-----DQIRHAGDLYA 106
+ + L K L+S + G + + EEL + +E + +
Sbjct: 114 DADDLEQWLEEKEAALASEDLGKDLESVEELLKKHKELEEELEAHEPRLKSLNELAEELL 173
Query: 107 ELSHQ 111
E H
Sbjct: 174 EEGHP 178
>gnl|CDD|204210 pfam09361, Phasin_2, Phasin protein. This entry describes a
group of small proteins found associated with
inclusions in bacterial cells. Most associate with
polyhydroxyalkanoate (PHA) inclusions, the most common
of which consist of polyhydroxybutyrate (PHB). These
are designated granule-associate proteins or phasins.
Length = 102
Score = 26.8 bits (60), Expect = 8.2
Identities = 9/46 (19%), Positives = 19/46 (41%), Gaps = 4/46 (8%)
Query: 1 MATALEQFVNNVRQLSAQGSFREL----TEIIQKSMDVLTKYGQHL 42
+LE+ + + L+ +E TE+ Q + + Y + L
Sbjct: 37 AKASLEESLAAAKALAGAKDPQEAFELQTELAQPAAEKAVAYARKL 82
>gnl|CDD|227403 COG5071, RPN5, 26S proteasome regulatory complex component
[Posttranslational modification, protein turnover,
chaperones].
Length = 439
Score = 28.4 bits (63), Expect = 8.3
Identities = 31/180 (17%), Positives = 68/180 (37%), Gaps = 22/180 (12%)
Query: 197 YLALKNYERALYFFEVIITTPA---LAVSHIMLEGYKKYLLIYLIVYGKAPNLPKNVSQA 253
YL + Y RA+Y V+ PA +S++ + + N ++
Sbjct: 228 YLDVCKYYRAVYDTAVVQEDPAKWKEVLSNV----------VCFALLTPYDNEQADLLHK 277
Query: 254 ICRYIKPLSQPYL-DLVSVYTNNNSTELQHLLLKYADV-------FSRDENTGLTKQIVA 305
I K S P L LV + N + Y F+ ++ +
Sbjct: 278 INADHKLNSLPLLQQLVKCFIVNELMRWPKVAEIYGSALRSNVFAFNDEKGEKRWSDLRK 337
Query: 306 SLYKNNIKRLTKTFLTLSLADVASRVQLGTPVQAEIYILKMISQNEIYATINKKDGMVVF 365
+ ++NI+ + + + + + + + +P + E +I ++++ YA IN+ ++ F
Sbjct: 338 RVIEHNIRVIANYYSRIHCSRLGVLLDM-SPSETEQFISDLVNKGHFYAKINRPAQIISF 396
>gnl|CDD|215047 PLN00070, PLN00070, aconitate hydratase.
Length = 936
Score = 28.6 bits (64), Expect = 8.9
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 6/39 (15%)
Query: 170 DITTIANEGPQF------DTKYFLQYFYYGGMIYLALKN 202
D+T + G F DT+ L YF +GG++ ++N
Sbjct: 894 DVTVTTDNGKSFTCTLRFDTEVELAYFDHGGILPYVIRN 932
>gnl|CDD|238947 cd01989, STK_N, The N-terminal domain of Eukaryotic Serine
Threonine kinases. The Serine Threonine kinases are
enzymes that belong to a very extensive family of
proteins which share a conserved catalytic core common
with both serine/threonine and tyrosine protein kinases.
The N-terminal domain is homologous to the USP family
which has a ATP binding fold. The N-terminal domain is
predicted to be involved in ATP binding.
Length = 146
Score = 27.2 bits (61), Expect = 9.0
Identities = 26/101 (25%), Positives = 38/101 (37%), Gaps = 16/101 (15%)
Query: 260 PLSQPYLDLVSVYTNNNSTELQHLLLKYADVFSRD---------ENTGLTKQIVASLYKN 310
P S L++ S Y E + LLL Y SR E+ + K IV + +
Sbjct: 43 PSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDVAKAIVEYVADH 102
Query: 311 NIKRLT------KTFLTLSL-ADVASRVQLGTPVQAEIYIL 344
I +L F +DVAS V P +Y++
Sbjct: 103 GITKLVMGASSDNHFSMKFKKSDVASSVLKEAPDFCTVYVV 143
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 0.134 0.374
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 21,808,525
Number of extensions: 2122557
Number of successful extensions: 1932
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1922
Number of HSP's successfully gapped: 34
Length of query: 437
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 337
Effective length of database: 6,502,202
Effective search space: 2191242074
Effective search space used: 2191242074
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 (21.7 bits)
S2: 60 (26.8 bits)