RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11331
(780 letters)
>gnl|CDD|218535 pfam05281, Secretogranin_V, Neuroendocrine protein 7B2 precursor
(Secretogranin V). The neuroendocrine protein 7B2 has a
critical role in the proteolytic conversion and
activation of proPC2, the enzyme responsible for the
proteolytic conversion of many peptide hormone
precursors. The 7B2 protein acts as an intracellular
binding protein for proPC2, facilitates its maturation,
and is required for its enzymatic activity. Processing
of many important peptide precursors does not occur in
7B2 nulls. 7B2 null mice exhibit a unique form of
Cushing's disease with many atypical symptoms, such as
hypoglycemia.
Length = 210
Score = 182 bits (462), Expect = 8e-53
Identities = 68/126 (53%), Positives = 81/126 (64%), Gaps = 7/126 (5%)
Query: 257 FDAVNPQTGFDYPESNNSPGHS-------PSLRDQEYLQQSSLWGHQFVQGGAGEGKQLL 309
D +P+T E++ + RD EYL S+L G Q + GGAGEG Q L
Sbjct: 18 DDDYSPRTPDLVSEADIQRLLHGVMEQLGIARRDVEYLAHSALVGPQSISGGAGEGLQHL 77
Query: 310 KPEGSIKNQNQVKTDATLPAYCNPPNPCPVGYTAEDGCLEDFENSAEYSRVYQAAQECMC 369
P G+I N VKTD LPAYCNPPNPCPVG TA+DGCLE+FEN+AE+SR YQA Q+C C
Sbjct: 78 GPYGNIPNIVAVKTDDNLPAYCNPPNPCPVGKTADDGCLENFENTAEFSREYQAHQDCFC 137
Query: 370 DAEHMF 375
D EHMF
Sbjct: 138 DPEHMF 143
Score = 174 bits (442), Expect = 6e-50
Identities = 71/142 (50%), Positives = 82/142 (57%), Gaps = 22/142 (15%)
Query: 654 SGGAGEGKQLLKPEGSIKNQNQVKTDATLPAYCNPPNPCPVGYTAEDGCLEDFENSAEYS 713
SGGAGEG Q L P G+I N VKTD LPAYCNPPNPCPVG TA+DGCLE+FEN+AE+S
Sbjct: 67 SGGAGEGLQHLGPYGNIPNIVAVKTDDNLPAYCNPPNPCPVGKTADDGCLENFENTAEFS 126
Query: 714 RVYQAAQECMCDAEHMFACPQEPPQHNPNEIEYSPFLNPDK------------------- 754
R YQA Q+C CD EHMF CP + + + P L K
Sbjct: 127 REYQAHQDCFCDPEHMFPCPAKSQTDSSKQESLQPILEESKWHKTLLAKKFHVKKSSRRS 186
Query: 755 ---NPYLQGDMLPIAAKKGNNV 773
NPYLQG+ L + AKK
Sbjct: 187 RSVNPYLQGERLDVVAKKDGPH 208
Score = 39.9 bits (93), Expect = 0.002
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 7/50 (14%)
Query: 108 FDAVNPQTGFDYPESNNSPGHS-------PSLRDQEYLQQSSLWGHQFVQ 150
D +P+T E++ + RD EYL S+L G Q +
Sbjct: 18 DDDYSPRTPDLVSEADIQRLLHGVMEQLGIARRDVEYLAHSALVGPQSIS 67
>gnl|CDD|223311 COG0233, Frr, Ribosome recycling factor [Translation, ribosomal
structure and biogenesis].
Length = 187
Score = 35.2 bits (82), Expect = 0.058
Identities = 25/87 (28%), Positives = 43/87 (49%), Gaps = 12/87 (13%)
Query: 411 TIFDITEKTVSTLSKAPEIAEL-VNHANKDSEIKLPF----SKTRRQLIPMFKKFAEVTR 465
FD + V + KA + L +N N + I++P + R++L+ + KK+AE +
Sbjct: 70 KPFD--KSMVKAIEKAILASNLGLNPNNDGNVIRVPLPPLTEERRKELVKVAKKYAEEAK 127
Query: 466 I-VKKIDRDLIASNMQTISQLQKDLPI 491
+ V+ I RD I +L+KD I
Sbjct: 128 VAVRNIRRDA----NDKIKKLEKDKEI 150
>gnl|CDD|240763 cd12317, RRM4_RBM19_RRM3_MRD1, RNA recognition motif 4 in
RNA-binding protein 19 (RBM19) and RNA recognition motif
3 in multiple RNA-binding domain-containing protein 1
(MRD1). This subfamily corresponds to the RRM4 of RBM19
and the RRM3 of MRD1. RBM19, also termed RNA-binding
domain-1 (RBD-1), is a nucleolar protein conserved in
eukaryotes involved in ribosome biogenesis by processing
rRNA and is essential for preimplantation development.
It has a unique domain organization containing 6
conserved RNA recognition motifs (RRMs), also termed
RBDs (RNA binding domains) or RNPs (ribonucleoprotein
domains). MRD1 is encoded by a novel yeast gene MRD1
(multiple RNA-binding domain). It is well conserved in
yeast and its homologues exist in all eukaryotes. MRD1
is present in the nucleolus and the nucleoplasm. It
interacts with the 35 S precursor rRNA (pre-rRNA) and U3
small nucleolar RNAs (snoRNAs). MRD1 is essential for
the initial processing at the A0-A2 cleavage sites in
the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which
may play an important structural role in organizing
specific rRNA processing events. .
Length = 72
Score = 30.7 bits (70), Expect = 0.38
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 444 LPFSKTRRQLIPMFKKFAEVTRIV 467
LPF T +L +F+KF + R++
Sbjct: 8 LPFGTTEEELRELFEKFGSLGRLL 31
>gnl|CDD|204641 pfam11403, Yeast_MT, Yeast metallothionein. Metallothioneins are
characterized by an abundance of cysteine residues and a
lack of generic secondary structure motifs. This protein
functions in primary metal storage, transport and
detoxification. For the first 40 residues in the protein
the polypeptide wraps around the metal by forming two
large parallel loops separated by a deep cleft
containing the metal cluster.
Length = 36
Score = 28.9 bits (64), Expect = 0.80
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 313 GSIKNQNQVKTDATLPAYCNPPNPCPVG 340
GS KN Q + + P CN + CP G
Sbjct: 8 GSCKNNEQCQKSCSCPTGCNSDDKCPCG 35
Score = 28.9 bits (64), Expect = 0.80
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 668 GSIKNQNQVKTDATLPAYCNPPNPCPVG 695
GS KN Q + + P CN + CP G
Sbjct: 8 GSCKNNEQCQKSCSCPTGCNSDDKCPCG 35
>gnl|CDD|220560 pfam10090, DUF2328, Uncharacterized protein conserved in bacteria
(DUF2328). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 181
Score = 31.4 bits (72), Expect = 0.95
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 377 SVPIPYLLKMELKLGLLLLLCLHTALPFG 405
+ L K E+KL L LLL ALP G
Sbjct: 76 QLERDLLPKPEVKLLLNLLLIAEDALPRG 104
>gnl|CDD|220663 pfam10266, Strumpellin, Hereditary spastic paraplegia protein
strumpellin. This is a family of proteins conserved
from plants to humans, in which two closely situated
point mutations in the human protein lead to the
condition of hereditary spastic paraplegia. Strumpellin
contains one known domain called a spectrin repeat that
consists of three alpha-helices of a characteristic
length wrapped in a left-handed coiled coil. The
spectrin proteins have multiple copies of this repeat,
which can then form multimers in the cell. Spectrin
associates with the cell membrane via spectrin repeats
in the ankyrin protein. The spectrin repeat is a
structural platform for cytoskeletal protein assemblies.
Length = 1077
Score = 31.1 bits (71), Expect = 2.6
Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 18/76 (23%)
Query: 457 FKKFAEVTRIVKKIDRDLIASNMQTISQLQKD-----LPIAFRFELKLDAIEDTITLIEL 511
F F +I KKI+ D + +L ++ + + RF ++I
Sbjct: 34 FSYFKAQDQIEKKIESD------PELLELDEEFRETHIELLERFYRLFESIY-------K 80
Query: 512 YYQNFLSYTDQAQEHY 527
Y Q+ Y ++ +E
Sbjct: 81 YVQDLNRYIEELEEGV 96
>gnl|CDD|150752 pfam10112, Halogen_Hydrol, 5-bromo-4-chloroindolyl phosphate
hydrolysis protein. Members of this family of
prokaryotic proteins mediate the hydrolysis of
5-bromo-4-chloroindolyl phosphate bonds.
Length = 199
Score = 30.0 bits (68), Expect = 3.6
Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 20/95 (21%)
Query: 398 LHTALPFGFDDIETIFDITEKTVSTLSKAPEIAELVNHANKDSEIKLPFSKTRRQLIPMF 457
+ A F + + ++TEK AEL K+ +I +TR +
Sbjct: 124 FYKAERFLYSHLPNAVELTEK----------YAELSKQPVKNKDIYQKLEETRITI---- 169
Query: 458 KKFAEVTRIVKKIDRDLIASNMQTISQLQKDLPIA 492
+ + I++DL + L +L +A
Sbjct: 170 ------DELSRTIEKDLQELLSDDLDDLDFELDVA 198
>gnl|CDD|178850 PRK00083, frr, ribosome recycling factor; Reviewed.
Length = 185
Score = 28.9 bits (66), Expect = 7.3
Identities = 21/84 (25%), Positives = 42/84 (50%), Gaps = 12/84 (14%)
Query: 411 TIFDITEKTVSTLSKAPEIAEL-VNHANKDSEIKLPF----SKTRRQLIPMFKKFAEVTR 465
+D + + + KA ++L +N +N + I+LP + R++L+ KK AE +
Sbjct: 68 QPWDKS--MLKAIEKAIRASDLGLNPSNDGTVIRLPIPPLTEERRKELVKQVKKEAEEAK 125
Query: 466 I-VKKIDRDLIASNMQTISQLQKD 488
+ ++ I RD + +L+KD
Sbjct: 126 VAIRNIRRDA----NDKLKKLEKD 145
>gnl|CDD|221056 pfam11277, Med24_N, Mediator complex subunit 24 N-terminal. This
subunit of the Mediator complex appears to be conserved
only from insects to humans. It is essential for correct
retinal development in fish. Subunit composition of the
mediator contributes to the control of differentiation
in the vertebrate CNS as there are divergent functions
of the mediator subunits Crsp34/Med27, Trap100/Med24,
and Crsp150/Med14.
Length = 991
Score = 29.8 bits (67), Expect = 7.3
Identities = 22/82 (26%), Positives = 31/82 (37%), Gaps = 5/82 (6%)
Query: 491 IAFRFELKLDAIEDTITLIELYYQNFLSYTDQAQEHYKE----SNQIDSNTQTST-SQPA 545
A+ L LD + +I+ S QE YKE +QI Q QP+
Sbjct: 625 CAYMRMLGLDERLKPLNMIQQLLSPLSSEETLQQEFYKERVGLMSQILRKMQADVLQQPS 684
Query: 546 PNIKFDKYTLENFATSLTSHVP 567
+ KF + L SH+P
Sbjct: 685 TSPKFRALGQSPYQQRLPSHLP 706
>gnl|CDD|227057 COG4713, COG4713, Predicted membrane protein [Function unknown].
Length = 489
Score = 29.5 bits (66), Expect = 7.7
Identities = 27/169 (15%), Positives = 45/169 (26%), Gaps = 33/169 (19%)
Query: 5 FTLLLLGVFSAEGFNGHFKVIEVLIVDARTTIHKYNKELYSGPK---LRPGQGPSLYNSK 61
T L + + + N I ++ + I + G +
Sbjct: 19 ITQLAVVIIPNQMPNTPKLFISLVFIVGVVFILFLGNSEKLVKNTFFIILFLGIGIIKPV 78
Query: 62 NDRVLTENLLREVVDKMGRDLADAYFDLPDLDSTNQNGRATDVDKDFDAVNPQTGFDYPE 121
N V E LR + LAD D+ + + D+D V P
Sbjct: 79 NFIVDEETHLRWTI-----RLADG-----DIFTRENEKQ-----PDWDKVEKYDTLRNP- 122
Query: 122 SNNSPGHSPSLRDQEYLQQSSLWGHQFVQDLKEGTVTVKVQAIPLASGI 170
N ++ + D E + + IP A GI
Sbjct: 123 --NLEHAKNGFPNKFF------------SDEHEASTYSNISYIPQALGI 157
>gnl|CDD|220267 pfam09494, Slx4, Slx4 endonuclease. The Slx4 protein is a
heteromeric structure-specific endonuclease found in
fungi. Slx4 with Slx1 acts as a nuclease on branched DNA
substrates, particularly simple-Y, 5'-flap, or
replication fork structures by cleaving the strand
bearing the 5' non-homologous arm at the branch junction
and thus generating ligatable nicked products from
5'-flap or replication fork substrates.
Length = 627
Score = 29.2 bits (65), Expect = 10.0
Identities = 26/140 (18%), Positives = 53/140 (37%), Gaps = 10/140 (7%)
Query: 458 KKFAEVTRIVKKIDRDLIASNMQTISQLQKDLPIA---FRFELKLDAIEDTITLIELYYQ 514
+ + ++ + N+ + SQL D + ++ LD + L
Sbjct: 174 SDLKSLKNYIYGAEKQEESENLWSASQLPPDTELTDEDLQWLYDLDDEQMANDNSPLVMT 233
Query: 515 NFLSYTDQAQEHYKESNQ--IDSNTQTSTSQPAPNIKFDKYTLENF--ATSLTSHVPTSV 570
LS T + Q ++ + IDS +S ++P + K + F + ++SH S
Sbjct: 234 --LSQTMEDQSAIEKESDSYIDSEPNSSITEPYDHDIQVKNSEPEFKPSNEISSHQVNST 291
Query: 571 RGLMERIN-EMIVPSSRDTV 589
I+ + + S D+V
Sbjct: 292 DNESSIISFPLHIADSSDSV 311
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
0.316 0.134 0.396
Gapped
Lambda K H
0.267 0.0511 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 39,565,718
Number of extensions: 3880745
Number of successful extensions: 3121
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3120
Number of HSP's successfully gapped: 22
Length of query: 780
Length of database: 10,937,602
Length adjustment: 105
Effective length of query: 675
Effective length of database: 6,280,432
Effective search space: 4239291600
Effective search space used: 4239291600
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 (21.6 bits)
S2: 63 (28.6 bits)