RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8630
(390 letters)
>gnl|CDD|216231 pfam00995, Sec1, Sec1 family.
Length = 554
Score = 306 bits (785), Expect = 1e-99
Identities = 142/468 (30%), Positives = 224/468 (47%), Gaps = 102/468 (21%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
+ ++ G+T+VE+I REPLP L A+Y I P E++V +++D + YK+ H++F
Sbjct: 20 VSDLLEHGVTLVENIENKREPLPDLPAIYFIRPTEENVDRIIDDLKNP---KYKSYHIFF 76
Query: 61 T-----ECF-----------------YYFSFLLVS--ILVLRMAN--------------M 82
T Y F+ + + L + N +
Sbjct: 77 TNSLSRSLLERLAEADVAELVKQVKEIYLDFIPLESDLFSLELPNSFRDLYSPDGDESDL 136
Query: 83 ERIAEQIATLCATLGEYPSVRYRSD-FDRNV--ELAQLVQQKLDAYKADEPTMGEGVEKA 139
ERIAE + +L TLGE P +RY+ + + +LAQL+Q+ LD + AD P+ K
Sbjct: 137 ERIAEGLFSLLLTLGEIPIIRYQGNSAAERLAEKLAQLLQENLDLFDADNPSTPP--SKP 194
Query: 140 RSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVT--------------------- 178
R LLILDR D ++PLLH+ T QAM +DLL I+N++VT
Sbjct: 195 RPVLLILDRSIDLITPLLHQWTYQAMVHDLLGIKNNRVTLDTPGNGGESKKEVVLDENDP 254
Query: 179 ------------------KNLKKFIDSKRMPQGDKQTMRDLSQMIKKMPQYQKELSKYST 220
K LK++ + + K+++ DL + ++K+P++QKE K S
Sbjct: 255 FWVENRHLHFPDVAEKIKKELKEYKEENKNSNKKKKSISDLKEFVEKLPEFQKEKGKLSL 314
Query: 221 HLHLAEDCMKAYQGY-VDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSNYDKM 279
HL+LAE+ MK + +DK+ +EQDLATG DA+ ++ I+ +L + V DK+
Sbjct: 315 HLNLAEELMKQIKERKLDKVSELEQDLATGSDADKQKKD-----ILELLNNPKVPLEDKL 369
Query: 280 RIIILYIL--NKNGISEDNLNKLITHAQIQPPEKQAIVNLANLGLNSVIDG------NRK 331
R+++LY L G ++L KL+ HA I P + NL LG R
Sbjct: 370 RLLLLYSLRDGGKGKDLEDLRKLLLHAGIGPEALNLVKNLEQLGGLLSRTSGSNFSDLRD 429
Query: 332 KLYQIPR---KERISECTYQMSRWTPIVKDIMEDAIEDKLDQKHFPFL 376
KL + + K +SR+ P++K I+ED I+ KLD +P+
Sbjct: 430 KLKLLVKEVSKSLPKGVKNVLSRYKPLLKRILEDLIKGKLDTDSYPYF 477
>gnl|CDD|227487 COG5158, SEC1, Proteins involved in synaptic transmission and
general secretion, Sec1 family [Intracellular
trafficking and secretion].
Length = 582
Score = 120 bits (304), Expect = 6e-30
Identities = 96/407 (23%), Positives = 162/407 (39%), Gaps = 87/407 (21%)
Query: 1 MHEISAEGMTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYF 60
E+ G+T+V+ I REP+ L A+Y + P ++++ ++ D Y H+ F
Sbjct: 44 TSELLEHGITLVDLIENKREPISDLPAIYFVRPTKENIDLILEDL-EQWDPFYLNYHISF 102
Query: 61 T----ECFY----------------------------YFSF-----LLVSILVLRMANME 83
E FS L S L +
Sbjct: 103 LNTVTESLLELLAESGVFEKILSVYEIYLDFFVLESDLFSLNLPESFLESSLPSTTEALI 162
Query: 84 RIAEQIATLCATLGEYPSVRYRSDFDRNVELAQLVQQKLDAYKADEPTMGEGVEKARSQL 143
+I + +LC +LG P +RY +A+ + ++ + R L
Sbjct: 163 KIVNGLFSLCVSLGRIPIIRYSGG-KNAEHMAKKLSDEIRNELSINFDGVVSKNPLRPIL 221
Query: 144 LILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVTKNL-------KK----------FID 186
+ILDR D ++PLLH+ T QAM +DLL I N+ VT KK + D
Sbjct: 222 IILDRSLDPITPLLHQWTYQAMLHDLLGINNNIVTIPSSSVNGPEKKFSLSDKDDPFWND 281
Query: 187 SKRMPQGD-----------------------KQTMRDLSQMIKKMPQYQKELSKYSTHLH 223
+K + G+ +++ D+ + + K+P+ QK + HL
Sbjct: 282 NKFLNFGEVGEKLKKLAKELKTKAQLRHKENAKSVNDIKEFVDKLPELQKRSRSLNKHLT 341
Query: 224 LAEDCMKAYQ-GYVDKLCRVEQDLATGEDAEGERIKDHMRNIVPILLDQNVSNYDKMRII 282
LA + +K + Y+D +EQ+L+TG D + I D + LL+ V DK+R++
Sbjct: 342 LASELLKVVEERYLDDFSEIEQNLSTGNDVK-SDISD-----LIELLESGVEEDDKLRLL 395
Query: 283 ILYILNKNGISED-NLNKLITHAQIQPPEKQAIVNLANLGLNSVIDG 328
ILY L K+G+ +D + +L+ L LG ++ D
Sbjct: 396 ILYSLTKDGLIKDIDELRLLRIQGYGIEALNFFQRLKELGFLTLKDS 442
>gnl|CDD|206668 cd01881, Obg_like, Obg-like family of GTPases consist of five
subfamilies: Obg, DRG, YyaF/YchF, Ygr210, and NOG1. The
Obg-like subfamily consists of five well-delimited,
ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210,
and NOG1. Four of these groups (Obg, DRG, YyaF/YchF, and
Ygr210) are characterized by a distinct glycine-rich
motif immediately following the Walker B motif (G3 box).
Obg/CgtA is an essential gene that is involved in the
initiation of sporulation and DNA replication in the
bacteria Caulobacter and Bacillus, but its exact
molecular role is unknown. Furthermore, several OBG
family members possess a C-terminal RNA-binding domain,
the TGS domain, which is also present in threonyl-tRNA
synthetase and in bacterial guanosine polyphosphatase
SpoT. Nog1 is a nucleolar protein that might function in
ribosome assembly. The DRG and Nog1 subfamilies are
ubiquitous in archaea and eukaryotes, the Ygr210
subfamily is present in archaea and fungi, and the Obg
and YyaF/YchF subfamilies are ubiquitous in bacteria and
eukaryotes. The Obg/Nog1 and DRG subfamilies appear to
form one major branch of the Obg family and the Ygr210
and YchF subfamilies form another branch. No GEFs, GAPs,
or GDIs for Obg have been identified.
Length = 167
Score = 31.6 bits (72), Expect = 0.43
Identities = 20/84 (23%), Positives = 33/84 (39%), Gaps = 1/84 (1%)
Query: 251 DAEGERIKDHMRNIVPILLDQNVSNYDKMRIIILYILNKN-GISEDNLNKLITHAQIQPP 309
DA + + D + + + + + S + + NK SE+NL +L +
Sbjct: 84 DASEDCVGDPLEDQKTLNEEVSGSFLFLKNKPEMIVANKIDMASENNLKRLKLDKLKRGI 143
Query: 310 EKQAIVNLANLGLNSVIDGNRKKL 333
L LGL+ VI RK L
Sbjct: 144 PVVPTSALTRLGLDRVIRTIRKLL 167
>gnl|CDD|205193 pfam13012, MitMem_reg, Maintenance of mitochondrial structure and
function. This is C-terminal to the Mov24 region of the
yeast proteasomal subunit Rpn11 and seems likely to
regulate the mitochondrial fission and tubulation
processes, ie the outer mitochondrial membrane proteins.
This function appears to be unrelated to the proteasome
activity of the N-terminal region.
Length = 115
Score = 29.1 bits (66), Expect = 1.6
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 153 VSPLLHELTLQAMAYDLLNIENDQVTKNLKKFIDSKRMPQGDKQTMRDLSQMIKKMPQYQ 212
S L +L L+ A L+ + L+ ID K + + +R L ++ +P Y
Sbjct: 20 YSTLSRKLELEQKALKNLHKRLWTIGLYLEDVIDGKL--PPNHEILRKLQSLLNLLPNYD 77
Query: 213 KE 214
+
Sbjct: 78 NK 79
>gnl|CDD|241167 cd12723, RRM1_CPEB1, RNA recognition motif 1 in cytoplasmic
polyadenylation element-binding protein 1 (CPEB-1) and
similar proteins. This subgroup corresponds to the
RRM2 of CPEB-1 (also termed CPE-BP1 or CEBP), an
RNA-binding protein that interacts with the cytoplasmic
polyadenylation element (CPE), a short U-rich motif in
the 3' untranslated regions (UTRs) of certain mRNAs. It
functions as a translational regulator that plays a
major role in the control of maternal CPE-containing
mRNA in oocytes, as well as of subsynaptic
CPE-containing mRNA in neurons. Once phosphorylated and
recruiting the polyadenylation complex, CPEB-1 may
function as a translational activator stimulating
polyadenylation and translation. Otherwise, it may
function as a translational inhibitor when
dephosphorylated and bound to a protein such as maskin
or neuroguidin, which blocks translation initiation
through interfering with the assembly of eIF-4E and
eIF-4G. Although CPEB-1 is mainly located in cytoplasm,
it can shuttle between nucleus and cytoplasm. CPEB-1
contains an N-terminal unstructured region, two RNA
recognition motifs (RRMs), also termed RBDs (RNA
binding domains) or RNPs (ribonucleoprotein domains),
and a Zn-finger motif. Both of the RRMs and the Zn
finger are required for CPEB-1 to bind CPE. The
N-terminal regulatory region may be responsible for
CPEB-1 interacting with other proteins. .
Length = 100
Score = 28.1 bits (63), Expect = 2.3
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 28 VYLITPCEKSVKALMND 44
VYLI EKSVKAL+
Sbjct: 49 VYLIFESEKSVKALLQA 65
>gnl|CDD|221541 pfam12348, CLASP_N, CLASP N terminal. This region is found at the
N terminal of CLIP-associated proteins (CLASPs). CLASPs
are widely conserved microtubule plus-end-tracking
proteins that regulate the stability of dynamic
microtubules. In yeast, Drosophila, and Xenopus, a
single CLASP orthologue is present. In mammals, a second
paralogue (CLASP2) exists which has some functional
overlap with CLASP1.
Length = 228
Score = 29.5 bits (67), Expect = 2.4
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 5/56 (8%)
Query: 9 MTIVEDIHKAREPLPSLEAVYLITPCEKSVKALMNDFNSSTRTMYKAAHVYFTECF 64
+ I HK +E + EKS+K + D N R ++ F +
Sbjct: 158 LLIRHGHHK-----SHIEHHGGLDLYEKSLKKGLEDANPGVRETARSTFWEFFRVW 208
>gnl|CDD|215730 pfam00118, Cpn60_TCP1, TCP-1/cpn60 chaperonin family. This family
includes members from the HSP60 chaperone family and the
TCP-1 (T-complex protein) family.
Length = 481
Score = 29.1 bits (66), Expect = 4.0
Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 2/60 (3%)
Query: 130 PTMGEGVEKARSQLLILDRGFDCVSPLLHELTLQAMAYDLLNIENDQVTKNLKKFIDSKR 189
P M + +E + +L+LD + ++ LL E Q+ L+K +D+
Sbjct: 187 PDMPKRLENPK--ILLLDCPLEYEKTEKVIISTAEELERLLEAEEKQLLPLLEKIVDAGV 244
>gnl|CDD|146444 pfam03805, CLAG, Cytoadherence-linked asexual protein. Clag
(cytoadherence linked asexual gene) is a malaria surface
protein which has been shown to be involved in the
binding of Plasmodium falciparum infected erythrocytes
to host endothelial cells, a process termed
cytoadherence. The cytoadherence phenomenon is
associated with the sequestration of infected
erythrocytes in the blood vessels of the brain, cerebral
malaria. Clag is a multi-gene family in Plasmodium
falciparum with at least 9 members identified to date.
Orthologous proteins in the rodent malaria species
Plasmodium chabaudi (Lawson D Unpubl. obs.) suggest that
the gene family is found in other malaria species and
may play a more generic role in cytoadherence.
Length = 1282
Score = 29.3 bits (66), Expect = 4.2
Identities = 11/43 (25%), Positives = 21/43 (48%), Gaps = 2/43 (4%)
Query: 330 RKKLYQIPRKERISECTYQMSRWTPIVKDIMEDAIEDKLDQKH 372
R +L++ ++ Y W ++K I+E A E +Q+H
Sbjct: 701 RYELHRKVLSQKFVAPKYNK--WNEVLKKIIESAYEMYFNQRH 741
>gnl|CDD|215576 PLN03102, PLN03102, acyl-activating enzyme; Provisional.
Length = 579
Score = 28.8 bits (64), Expect = 5.2
Identities = 12/45 (26%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 294 EDNLNKLITHAQIQPPEKQAIVNLANLGLNSVIDGNRKKLYQIPR 338
+D N+L + Q++ +Q + + LGL V N++ +PR
Sbjct: 346 QDEWNRLPENQQMELKARQGV---SILGLADVDVKNKETQESVPR 387
>gnl|CDD|224893 COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid
transport and metabolism].
Length = 557
Score = 28.8 bits (65), Expect = 5.7
Identities = 17/71 (23%), Positives = 26/71 (36%), Gaps = 9/71 (12%)
Query: 65 YYFSFLLVSI------LVLRMANMERIAEQIATLCATLGEYPSVRYRSDFDRNVELAQLV 118
Y L LV R+ +R + A L L PS+ + R + + QL
Sbjct: 378 YSNLLLFSPGIGKWQTLVDRLLEFKRRYDDDAPLKQVL---PSLYDQYPRYRGMGIRQLC 434
Query: 119 QQKLDAYKADE 129
Q+ D Y +
Sbjct: 435 QEMHDLYVSLN 445
>gnl|CDD|223384 COG0307, RibC, Riboflavin synthase alpha chain [Coenzyme
metabolism].
Length = 204
Score = 28.0 bits (63), Expect = 7.6
Identities = 8/29 (27%), Positives = 16/29 (55%)
Query: 168 DLLNIENDQVTKNLKKFIDSKRMPQGDKQ 196
D +NIE D + K +++ + + + Q K
Sbjct: 175 DRVNIEIDVLAKYVERLLAAGKASQKAKS 203
>gnl|CDD|225288 COG2433, COG2433, Uncharacterized conserved protein [Function
unknown].
Length = 652
Score = 28.5 bits (64), Expect = 7.6
Identities = 14/34 (41%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 228 CMKAYQGYVDKLCRVEQDL-ATGEDAEGERIKDH 260
KAY Y KL +VE+ L G + ERIK
Sbjct: 350 AYKAYLAYKPKLEKVERKLPELGIWKDVERIKAL 383
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 0.383
Gapped
Lambda K H
0.267 0.0828 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,640,412
Number of extensions: 1893726
Number of successful extensions: 1967
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1954
Number of HSP's successfully gapped: 33
Length of query: 390
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 291
Effective length of database: 6,546,556
Effective search space: 1905047796
Effective search space used: 1905047796
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: 60 (26.7 bits)