RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15918
(376 letters)
>gnl|CDD|189470 pfam00250, Fork_head, Fork head domain.
Length = 96
Score = 192 bits (491), Expect = 1e-61
Identities = 67/96 (69%), Positives = 77/96 (80%)
Query: 117 KPPYSYNALIMMAIRQSPEKRLTLNGIYEYIMTNFPYYKTNKQGWQNSIRHNLSLNKCFV 176
KPPYSY ALI MAI+QSPEK LTL+ IY++IM FPYY+ NKQGWQNSIRHNLSLNKCF+
Sbjct: 1 KPPYSYIALITMAIQQSPEKMLTLSEIYQWIMDLFPYYRQNKQGWQNSIRHNLSLNKCFI 60
Query: 177 KVPRHYDDPGKGNYWMLDASSEDVFIGGTTGKLRRR 212
KVPR D PGKG+YW LD SE++F G K R+R
Sbjct: 61 KVPRSPDKPGKGSYWTLDPESENMFENGKYLKRRKR 96
>gnl|CDD|238016 cd00059, FH, Forkhead (FH), also known as a "winged helix". FH is
named for the Drosophila fork head protein, a
transcription factor which promotes terminal rather than
segmental development. This family of transcription
factor domains, which bind to B-DNA as monomers, are
also found in the Hepatocyte nuclear factor (HNF)
proteins, which provide tissue-specific gene regulation.
The structure contains 2 flexible loops or "wings" in
the C-terminal region, hence the term winged helix.
Length = 78
Score = 171 bits (437), Expect = 8e-54
Identities = 57/78 (73%), Positives = 66/78 (84%)
Query: 117 KPPYSYNALIMMAIRQSPEKRLTLNGIYEYIMTNFPYYKTNKQGWQNSIRHNLSLNKCFV 176
KPPYSY+ALI MAI+ SPEKRLTL+ IY++I NFPY++ GWQNSIRHNLSLNKCFV
Sbjct: 1 KPPYSYSALIAMAIQSSPEKRLTLSEIYKWISDNFPYFRDAPAGWQNSIRHNLSLNKCFV 60
Query: 177 KVPRHYDDPGKGNYWMLD 194
KVPR D+PGKG+YW LD
Sbjct: 61 KVPREPDEPGKGSYWTLD 78
>gnl|CDD|214627 smart00339, FH, FORKHEAD. FORKHEAD, also known as a "winged
helix".
Length = 89
Score = 167 bits (426), Expect = 4e-52
Identities = 60/89 (67%), Positives = 71/89 (79%)
Query: 117 KPPYSYNALIMMAIRQSPEKRLTLNGIYEYIMTNFPYYKTNKQGWQNSIRHNLSLNKCFV 176
KPPYSY ALI MAI SP+KRLTL+ IY++I NFPYY+ N+ GWQNSIRHNLSLN CFV
Sbjct: 1 KPPYSYIALIAMAILSSPDKRLTLSEIYKWIEDNFPYYRENRAGWQNSIRHNLSLNDCFV 60
Query: 177 KVPRHYDDPGKGNYWMLDASSEDVFIGGT 205
KVPR D PGKG+YW LD ++E++F G
Sbjct: 61 KVPREGDRPGKGSYWTLDPAAENMFENGN 89
>gnl|CDD|227358 COG5025, COG5025, Transcription factor of the Forkhead/HNF3 family
[Transcription].
Length = 610
Score = 89.1 bits (221), Expect = 3e-19
Identities = 50/140 (35%), Positives = 64/140 (45%), Gaps = 4/140 (2%)
Query: 84 DCSNKKSSEDNNASSEESKANEEGKPKECKKDEKPPYSYNALIMMAIRQSPEKRLTLNGI 143
D K S + + + KP +SY I AI SP ++TL+ I
Sbjct: 304 DEGRKGSKSSPVPKDAAPPSTLSDLSADVNRTSKPAFSYANSITQAILSSPSGKMTLSEI 363
Query: 144 YEYIMTNFPYYKTNKQGWQNSIRHNLSLNKCFVKVPRHYDDPGKGNYWMLDASSEDVFIG 203
Y +I +N PYY+ WQNSIRHNLSLNK F KVPR PGKG +W +D S
Sbjct: 364 YSWISSNLPYYRHKPTAWQNSIRHNLSLNKSFEKVPRSASQPGKGCFWKIDYSYIYEK-- 421
Query: 204 GTTGKLRRRTTAASRSRLAA 223
K R+ S S +
Sbjct: 422 --ESKRNPRSPKKSPSAHSV 439
Score = 77.9 bits (192), Expect = 1e-15
Identities = 44/158 (27%), Positives = 63/158 (39%), Gaps = 11/158 (6%)
Query: 55 NDLSDVDHEYMSDVDVTGDVDVTGDASPLDCSNKKSS-EDNNASSEESKANEEGKPKECK 113
+ + V +V + G + + + + N +E +
Sbjct: 13 EREKQMIPKKSITVSKLKEVVINGKSHNVSSVLSSPKAPTRVSLDYSNSLNRSVGSEEIQ 72
Query: 114 KDEK----------PPYSYNALIMMAIRQSPEKRLTLNGIYEYIMTNFPYYKTNKQGWQN 163
K PPYSY +AI SP+K LTL+ IY +I F YY WQN
Sbjct: 73 AYAKLAGSNWTYYVPPYSYATGRGLAILNSPDKPLTLSKIYTWIHNTFFYYAKVVSRWQN 132
Query: 164 SIRHNLSLNKCFVKVPRHYDDPGKGNYWMLDASSEDVF 201
SIRHNLSLN F+K+ KG++W + E F
Sbjct: 133 SIRHNLSLNDAFIKIEGRNGAKVKGHFWSIGPGHETQF 170
Score = 32.9 bits (75), Expect = 0.27
Identities = 12/54 (22%), Positives = 19/54 (35%)
Query: 121 SYNALIMMAIRQSPEKRLTLNGIYEYIMTNFPYYKTNKQGWQNSIRHNLSLNKC 174
+ALI + S ++L T+ P + G +N R N S
Sbjct: 226 KSSALIRIPADSSSNLDVSLGHHISQPSTHTPVLDNHSSGEENISRINNSSQID 279
>gnl|CDD|237537 PRK13875, PRK13875, conjugal transfer protein TrbL; Provisional.
Length = 440
Score = 31.8 bits (73), Expect = 0.54
Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 2/55 (3%)
Query: 203 GGTTGKLRRRTTAASRSRLAAFKRSAVFGAAAAGIYPPGFIPTATPGSYPPPSWA 257
LRR + A+ S ++F+ A AG A + PP+WA
Sbjct: 350 SAAASPLRRAASRAAESMKSSFRAGARSTGGGAGGAAAA--AAAGAAAAGPPAWA 402
>gnl|CDD|214574 smart00233, PH, Pleckstrin homology domain. Domain commonly found
in eukaryotic signalling proteins. The domain family
possesses multiple functions including the abilities to
bind inositol phosphates, and various proteins. PH
domains have been found to possess inserted domains
(such as in PLC gamma, syntrophins) and to be inserted
within other domains. Mutations in Brutons tyrosine
kinase (Btk) within its PH domain cause X-linked
agammaglobulinaemia (XLA) in patients. Point mutations
cluster into the positively charged end of the molecule
around the predicted binding site for
phosphatidylinositol lipids.
Length = 102
Score = 28.3 bits (63), Expect = 2.0
Identities = 10/50 (20%), Positives = 20/50 (40%)
Query: 153 YYKTNKQGWQNSIRHNLSLNKCFVKVPRHYDDPGKGNYWMLDASSEDVFI 202
YYK+ K + ++ L+ C V+ D K + + + S +
Sbjct: 32 YYKSKKDKKSYKPKGSIDLSGCTVREAPDPDSSKKPHCFEIKTSDRKTLL 81
>gnl|CDD|215055 PLN00101, PLN00101, Photosystem I light-harvesting complex type 4
protein; Provisional.
Length = 250
Score = 29.9 bits (67), Expect = 2.2
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 2/56 (3%)
Query: 196 SSEDVFIGGTTGKLRR--RTTAASRSRLAAFKRSAVFGAAAAGIYPPGFIPTATPG 249
SS+ F+ G++ KL R S +FK A G G+ PG++ + PG
Sbjct: 17 SSKSRFLSGSSSKLNRELSFKPMPSSATRSFKVEAKKGEWLPGLASPGYLNGSLPG 72
>gnl|CDD|234293 TIGR03648, Na_symport_lg, probable sodium:solute symporter, VC_2705
subfamily. This family belongs to a larger family of
transporters of the sodium:solute symporter superfamily,
TC 2.A.21. Members of this strictly bacterial protein
subfamily are found almost invariably immediately
downstream from a member of family TIGR03647.
Occasionally, the two genes are fused.
Length = 552
Score = 29.9 bits (68), Expect = 2.2
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 3/32 (9%)
Query: 215 AASRSRLAAFKRS---AVFGAAAAGIYPPGFI 243
A+ + RL + + A A G+ PPGFI
Sbjct: 407 ASEKQRLLVARIALVVAAVIAGYFGLNPPGFI 438
>gnl|CDD|234300 TIGR03662, Chlor_Arch_YYY, Chlor_Arch_YYY domain. Members of this
highly hydrophobic probable integral membrane family
belong to two classes. In one, a single copy of the
region modeled by This model represents essentially the
full length of a strongly hydrophobic protein of about
700 to 900 residues (variable because of long inserts in
some). The domain architecture of the other class
consists of an additional N-terminal region, two copies
of the region represented by this model, and three to
four repeats of TPR, or tetratricopeptide repeat. The
unusual species range includes several Archaea, several
Chloroflexi, and Clostridium phytofermentans. An unusual
motif YYYxG is present, and we suggest the name
Chlor_Arch_YYY protein. The function is unknown.
Length = 723
Score = 29.7 bits (67), Expect = 2.9
Identities = 20/107 (18%), Positives = 32/107 (29%), Gaps = 16/107 (14%)
Query: 190 YWMLDASSEDVFIGGTTGKLRRRTTAASRSRLAAFKRSAVFGAAAAGIYPPGFIPTATPG 249
W+L A + R+ + A AGIYP +PT
Sbjct: 531 GWLLRAYR--------GRRKRQFLRKGWAAICAIL-------LLLAGIYPVVAVPTRIRD 575
Query: 250 SYPPPSWALQQLYCNPLYRYNPYAYPGLQAAAIPKPTPLPAHGGAFS 296
P+ Y + + A L+ P L A G +++
Sbjct: 576 GEAGPTLDGMA-YLEESHPEDAAAIRWLRQNIDGTPVILEAAGDSYT 621
>gnl|CDD|221592 pfam12471, GTP_CH_N, GTP cyclohydrolase N terminal. This domain
family is found in bacteria and eukaryotes, and is
approximately 190 amino acids in length. This family is
the N terminal of GTP cyclohydrolase, the rate limiting
enzyme in the synthesis of tetrahydrobiopterin.
Length = 195
Score = 28.3 bits (64), Expect = 4.7
Identities = 11/32 (34%), Positives = 15/32 (46%), Gaps = 5/32 (15%)
Query: 290 AHGGAFSMERLLAD-----PATFRPNFVQTSP 316
AH G++S+ R LA RP+ T P
Sbjct: 51 AHSGSYSIYRALAVAAGALDPDHRPDLTNTEP 82
>gnl|CDD|223815 COG0744, MrcB, Membrane carboxypeptidase (penicillin-binding
protein) [Cell envelope biogenesis, outer membrane].
Length = 661
Score = 28.9 bits (65), Expect = 4.9
Identities = 12/41 (29%), Positives = 15/41 (36%)
Query: 212 RTTAASRSRLAAFKRSAVFGAAAAGIYPPGFIPTATPGSYP 252
R T A R + FK + A G P I P +Y
Sbjct: 356 RATQAKRQPGSTFKPFLYYAALEEGKATPSTIVVDAPVTYG 396
>gnl|CDD|235221 PRK04123, PRK04123, ribulokinase; Provisional.
Length = 548
Score = 28.7 bits (65), Expect = 5.9
Identities = 11/20 (55%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 227 SAVFGAAAAGIYPPGFIPTA 246
+A+F A AAG YP IP A
Sbjct: 480 AAIFAAVAAGAYPD--IPEA 497
>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein. The YqfQ-like protein family
includes the B. subtilis YqfQ protein, also known as
VrrA, which is functionally uncharacterized. This family
of proteins is found in bacteria. Proteins in this
family are typically between 146 and 237 amino acids in
length. There are two conserved sequence motifs: QYGP
and PKLY.
Length = 155
Score = 27.8 bits (62), Expect = 6.3
Identities = 7/34 (20%), Positives = 11/34 (32%)
Query: 86 SNKKSSEDNNASSEESKANEEGKPKECKKDEKPP 119
S ++ + EES E + K E
Sbjct: 90 ELSSSDDEEEETEEESTDETEQEDPPETKTESKE 123
>gnl|CDD|224701 COG1787, COG1787, Predicted endonuclease distantly related to
archaeal Holliday junction resolvase and Mrr-like
restriction enzymes [Defense mechanisms].
Length = 217
Score = 27.9 bits (62), Expect = 6.7
Identities = 12/45 (26%), Positives = 16/45 (35%)
Query: 216 ASRSRLAAFKRSAVFGAAAAGIYPPGFIPTATPGSYPPPSWALQQ 260
A R A K++ A+ Y T GSY + L Q
Sbjct: 152 AKRYISAVSKKAIQEIVASKAYYGCEKAKVVTNGSYTYAAQKLAQ 196
>gnl|CDD|179825 PRK04326, PRK04326, methionine synthase; Provisional.
Length = 330
Score = 28.0 bits (63), Expect = 7.6
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 240 PGFIPTATPGSYPPPSWALQ 259
F+PT GSYP P W +
Sbjct: 6 LPFLPTTVVGSYPKPKWLRE 25
>gnl|CDD|198358 cd07781, FGGY_RBK, Ribulokinases; belongs to the FGGY family of
carbohydrate kinases. This subgroup is predominantly
composed of bacterial ribulokinases (RBK) which catalyze
the MgATP-dependent phosphorylation of L(or D)-ribulose
to produce L(or D)-ribulose 5-phosphate and ADP. RBK
also phosphorylates a variety of other sugar substrates
including ribitol and arabitol. The reason why L-RBK can
phosphorylate so many different substrates is not yet
clear. The presence of Mg2+ is required for catalytic
activity. This group belongs to the FGGY family of
carbohydrate kinases, the monomers of which contain two
large domains, which are separated by a deep cleft that
forms the active site. This model includes both the
N-terminal domain, which adopts a ribonuclease H-like
fold, and the structurally related C-terminal domain.
Length = 498
Score = 28.4 bits (64), Expect = 7.8
Identities = 8/13 (61%), Positives = 11/13 (84%)
Query: 227 SAVFGAAAAGIYP 239
+A+F A AAG+YP
Sbjct: 477 AAIFAAVAAGVYP 489
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 28.3 bits (63), Expect = 8.2
Identities = 14/62 (22%), Positives = 24/62 (38%), Gaps = 7/62 (11%)
Query: 53 SDNDLSDVDHEYMSDVDVTGDVDVTGDASPLDCSNKKSSEDNNASSEESKANEEGKPKEC 112
S ++ + ++ + T S D S+ + SE + S E + KPKE
Sbjct: 214 SSDEEEGEEAPSINYNEDT-------SESESDESDSEISESRSVSDSEESSPPSKKPKEK 266
Query: 113 KK 114
K
Sbjct: 267 KT 268
>gnl|CDD|237057 PRK12323, PRK12323, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 700
Score = 28.3 bits (63), Expect = 9.1
Identities = 21/103 (20%), Positives = 25/103 (24%), Gaps = 6/103 (5%)
Query: 214 TAASRSRLAAFKRSAVFGAAAAGIYPPGFIPTATPGSYPPPSWALQQLYCNPLYRYNPYA 273
AA + A AAA A P P AL R
Sbjct: 389 AAAPAAAAPAPAAPPAAPAAAPAAAAAARAVAAAPARRSPAPEAL------AAARQASAR 442
Query: 274 YPGLQAAAIPKPTPLPAHGGAFSMERLLADPATFRPNFVQTSP 316
PG A P P PA + A + +P
Sbjct: 443 GPGGAPAPAPAPAAAPAAAARPAAAGPRPVAAAAAAAPARAAP 485
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
0.314 0.130 0.393
Gapped
Lambda K H
0.267 0.0768 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,303,431
Number of extensions: 1809245
Number of successful extensions: 1350
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1343
Number of HSP's successfully gapped: 34
Length of query: 376
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 278
Effective length of database: 6,590,910
Effective search space: 1832272980
Effective search space used: 1832272980
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: 42 (22.0 bits)
S2: 60 (26.8 bits)