RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13591
(339 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 101 bits (253), Expect = 3e-27
Identities = 31/57 (54%), Positives = 41/57 (71%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKK 334
+R R T++ Q ELEKEF N+Y S + R E+A +L LTERQ+K+WFQNRR K K+
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 57
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in
the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 92.3 bits (230), Expect = 6e-24
Identities = 34/59 (57%), Positives = 42/59 (71%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
+R R ++ Q ELEKEF N Y SR+ R E+A EL LTERQ+KIWFQNRR KLK+ +
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 91.5 bits (228), Expect = 1e-23
Identities = 30/57 (52%), Positives = 40/57 (70%)
Query: 277 NKRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLK 333
+R R +++ Q ELEKEF N Y SR+ R E+A +L L+ERQ+K+WFQNRR K K
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 55.9 bits (135), Expect = 1e-09
Identities = 22/59 (37%), Positives = 36/59 (61%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
K R+ + Q + LE+EF N Y S RI+++ L + + ++IWFQN+R K KK++
Sbjct: 52 KSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKR 110
>gnl|CDD|203350 pfam05920, Homeobox_KN, Homeobox KN domain. This is a homeobox
transcription factor KN domain conserved from fungi to
human and plants.
Length = 40
Score = 28.6 bits (65), Expect = 0.48
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 298 YNKYLSRKRRIEIAHELQLTERQIKIWFQNRRM 330
+N Y S + + E+A + L+ +QI WF N R
Sbjct: 7 HNPYPSEEEKSELARQTGLSRKQIDNWFINARR 39
>gnl|CDD|237841 PRK14867, PRK14867, DNA topoisomerase VI subunit B; Provisional.
Length = 659
Score = 31.3 bits (71), Expect = 0.83
Identities = 25/145 (17%), Positives = 56/145 (38%), Gaps = 16/145 (11%)
Query: 67 KYFDKDAKYFDKDPAKYYDNFLDHNTINYNHMNAFNQFHMKSNPNHTDYLRTNSDKETLN 126
KYFDK YFDK + + N + + + +K +YL D+E +
Sbjct: 306 KYFDKYGHYFDKKEIEDVKMLI--NGLP-ESLGELKTYCLKYLV--MEYLFNKLDEEEIK 360
Query: 127 ATNFMKPSFDKDAKYFDKDPAKYYDNFLNHNAMNYNQMNAFNQFHMKLNPNHTDYLRTNS 186
+ +F K P + + + N +N + ++ F + + + ++++
Sbjct: 361 ----------EIKNHFKKKPENFME-WAEKNYLNASLLDEFRKKVKNITKSPEEFVKELK 409
Query: 187 DKETLNATNFVPKDEAISEMVDGKP 211
DK ++ + I +++ P
Sbjct: 410 DKAMVSDEELEKYRKEIKDLLKKNP 434
>gnl|CDD|221957 pfam13175, AAA_15, AAA ATPase domain. This family of domains
contain a P-loop motif that is characteristic of the AAA
superfamily.
Length = 320
Score = 30.8 bits (70), Expect = 1.0
Identities = 26/132 (19%), Positives = 40/132 (30%), Gaps = 9/132 (6%)
Query: 27 NQTFHPNQYYEAYNNNGPTKPEPNPCQYENRDARYF---DKDAKYFDKDAK---YFDKDP 80
+ F+ N Y E NN+ + E + K AK +F
Sbjct: 91 SIKFYLNYYLEIINNDVEDEIELLLFSKNLEYILKKILDKIEKFDEIKGAKKKDFFKSIN 150
Query: 81 AKYYDNFLDHNTINYNHMNAFNQFHMKSNPNHTDYLRTNSDKETLNATNFMKPSFDKDAK 140
DNF+D N Q ++ N D L +N E L+ K S ++ K
Sbjct: 151 IYEIDNFIDKTLSKILDDNIVFQDNL--EKNIDDKL-SNIFNEKLSNLKNEKISINEKIK 207
Query: 141 YFDKDPAKYYDN 152
+
Sbjct: 208 SILNEINPDSKF 219
>gnl|CDD|118503 pfam09974, DUF2209, Uncharacterized protein conserved in archaea
(DUF2209). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 128
Score = 29.4 bits (66), Expect = 1.2
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 6/44 (13%)
Query: 292 LEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKE 335
L F Y + ++ + IE+AH + + R++ I +LK E
Sbjct: 91 LSAPFKYQETVAEREAIEMAHHVSYSVRKLLI------KELKIE 128
>gnl|CDD|227258 COG4921, COG4921, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 131
Score = 29.4 bits (66), Expect = 1.4
Identities = 13/45 (28%), Positives = 23/45 (51%), Gaps = 6/45 (13%)
Query: 292 LEKEFHYNKYLSRKRRIEIAHELQLTERQIKIWFQNRRMKLKKEK 336
L F Y + ++ + IE+AH L + R++ I M+LK +
Sbjct: 93 LGAPFKYAETVAEREAIEMAHHLSYSVRRLLI------MELKVAQ 131
>gnl|CDD|220535 pfam10037, MRP-S27, Mitochondrial 28S ribosomal protein S27.
Members of this family of small ribosomal proteins
possess one of three conserved blocks of sequence found
in proteins that stimulate the dissociation of guanine
nucleotides from G-proteins, leaving open the
possibility that MRP-S27 might be a functional partner
of GTP-binding ribosomal proteins.
Length = 417
Score = 29.0 bits (65), Expect = 4.5
Identities = 13/61 (21%), Positives = 29/61 (47%), Gaps = 5/61 (8%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHE--LQLTERQIKIWFQNRRMKLKKE 335
+ ++ S+ Q L + LS + R+ + L+L E++ ++WF R +++
Sbjct: 341 ESFQEWRSKLQALA---KVESRSLLSVEERLPTIEKEDLELYEQRQQLWFFENRKLWQRK 397
Query: 336 K 336
K
Sbjct: 398 K 398
>gnl|CDD|111032 pfam02090, SPAM, Salmonella surface presentation of antigen gene
type M protein.
Length = 147
Score = 27.7 bits (61), Expect = 5.2
Identities = 11/43 (25%), Positives = 24/43 (55%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQ 320
++ R+ + L KE +Y +++ R++R+ I E+Q E +
Sbjct: 100 EKKREEFQEKSKYWLRKEGNYQRWIIRQKRLYIQREIQQEEAE 142
>gnl|CDD|185235 PRK15335, PRK15335, type III secretion system protein SpaM;
Provisional.
Length = 147
Score = 27.3 bits (60), Expect = 7.2
Identities = 11/43 (25%), Positives = 24/43 (55%)
Query: 278 KRSRQTYSRYQTLELEKEFHYNKYLSRKRRIEIAHELQLTERQ 320
++ R+ + + L KE +Y +++ R++R I E+Q E +
Sbjct: 100 EKKREEFQKKSKYWLRKEGNYQRWIIRQKRFYIQREIQQEEAE 142
>gnl|CDD|132979 cd06648, STKc_PAK_II, Catalytic domain of the Protein
Serine/Threonine Kinase, Group II p21-activated kinase.
Serine/threonine kinases (STKs), p21-activated kinase
(PAK) subfamily, Group II, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group from
ATP to serine/threonine residues on protein substrates.
The PAK subfamily is part of a larger superfamily that
includes the catalytic domains of other protein STKs,
protein tyrosine kinases, RIO kinases, aminoglycoside
phosphotransferase, choline kinase, and phosphoinositide
3-kinase. PAKs are Rho family GTPase-regulated kinases
that serve as important mediators in the function of
Cdc42 (cell division cycle 42) and Rac. PAKs from higher
eukaryotes are classified into two groups (I and II),
according to their biochemical and structural features.
Group II PAKs, also called non-conventional PAKs,
include PAK4, PAK5, and PAK6. Group II PAKs contain PBD
(p21-binding domain) and catalytic domains, but lack
other motifs found in group I PAKs, such as an AID
(autoinhibitory domain) and SH3 binding sites. Since
group II PAKs do not contain an obvious AID, they may be
regulated differently from group I PAKs. While group I
PAKs interact with the SH3 containing proteins Nck, Grb2
and PIX, no such binding has been demonstrated for group
II PAKs. Some known substrates of group II PAKs are also
substrates of group I PAKs such as Raf, BAD, LIMK and
GEFH1. Unique group II substrates include MARK/Par-1 and
PDZ-RhoGEF. Group II PAKs play important roles in
filopodia formation, neuron extension, cytoskeletal
organization, and cell survival.
Length = 285
Score = 27.8 bits (62), Expect = 9.0
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 205 EMVDGKPPGFN 215
EMVDG+PP FN
Sbjct: 207 EMVDGEPPYFN 217
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 0.395
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 17,012,842
Number of extensions: 1586404
Number of successful extensions: 1095
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1092
Number of HSP's successfully gapped: 40
Length of query: 339
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 241
Effective length of database: 6,590,910
Effective search space: 1588409310
Effective search space used: 1588409310
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: 59 (26.4 bits)