RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16514
(155 letters)
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 81.0 bits (201), Expect = 3e-21
Identities = 27/55 (49%), Positives = 39/55 (70%)
Query: 17 RRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRN 71
+R F+ Q + LEK F+ +Y S +R++LA+KLGL + QVK+WFQNRR KW+
Sbjct: 3 KRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 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 = 75.7 bits (187), Expect = 3e-19
Identities = 27/57 (47%), Positives = 40/57 (70%)
Query: 17 RRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWRNSK 73
+R F+ Q + LEK F+ Y S+ +R++LA++LGL + QVKIWFQNRR K + S+
Sbjct: 3 KRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 75.4 bits (186), Expect = 4e-19
Identities = 28/54 (51%), Positives = 39/54 (72%)
Query: 17 RRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWR 70
+R F+ Q + LEK FQ Y S+ +R++LA+KLGL + QVK+WFQNRR KW+
Sbjct: 4 KRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 44.0 bits (104), Expect = 3e-06
Identities = 27/107 (25%), Positives = 40/107 (37%), Gaps = 14/107 (13%)
Query: 7 DRGKPRRGMMRRAVFSDLQRKGLEKRFQIQKYISKPDRKKLAEKLGLKDSQVKIWFQNRR 66
P+ R +D Q LE+ F+I Y S R KL+ L + V+IWFQN+R
Sbjct: 47 GSSPPKSKRRRT---TDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKR 103
Query: 67 MKWRNSKERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNV 113
+KE+ G EQ + +S +
Sbjct: 104 -----AKEK--KKRSGKVEQRPGEEEADLAK----IGSLSTGQISII 139
>gnl|CDD|238240 cd00419, Ferrochelatase_C, Ferrochelatase, C-terminal domain:
Ferrochelatase (protoheme ferrolyase or HemH) is the
terminal enzyme of the heme biosynthetic pathway. It
catalyzes the insertion of ferrous iron into the
protoporphyrin IX ring yielding protoheme. This enzyme
is ubiquitous in nature and widely distributed in
bacteria and eukaryotes. Recently, some archaeal
members have been identified. The oligomeric state of
these enzymes varies depending on the presence of a
dimerization motif at the C-terminus.
Length = 135
Score = 29.4 bits (67), Expect = 0.35
Identities = 8/27 (29%), Positives = 17/27 (62%), Gaps = 2/27 (7%)
Query: 45 KKLAEKLGLKDSQVKIWFQNR--RMKW 69
+ +AE+LGL + ++ +Q+R +W
Sbjct: 48 RLVAERLGLPFDEYELAYQSRFGPGEW 74
>gnl|CDD|237863 PRK14949, PRK14949, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 944
Score = 29.7 bits (67), Expect = 0.59
Identities = 15/78 (19%), Positives = 24/78 (30%), Gaps = 9/78 (11%)
Query: 74 ERELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFT 133
+ EL + E L + + P P DRP ++E E
Sbjct: 678 DFELATHQSVPEAALASGSAPAPPPVPDPYDRPP---------WEEAPEVASANDGPNNA 728
Query: 134 DNEAESSEVEDDGDDDEE 151
S VED + + +
Sbjct: 729 AEGNLSESVEDASNSELQ 746
>gnl|CDD|240329 PTZ00248, PTZ00248, eukaryotic translation initiation factor 2
subunit 1; Provisional.
Length = 319
Score = 29.6 bits (67), Expect = 0.59
Identities = 10/36 (27%), Positives = 21/36 (58%)
Query: 118 DEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEEIN 153
+EE+ + + K + + E + SE ED+ ++DE+
Sbjct: 274 GDEEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEE 309
Score = 26.9 bits (60), Expect = 4.8
Identities = 11/37 (29%), Positives = 22/37 (59%)
Query: 118 DEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEEINV 154
+E+ E+ L + + + +++ SE ED+ D+DEE
Sbjct: 276 EEDLEELLEKAEEEEEEDDYSESEDEDEEDEDEEEEE 312
>gnl|CDD|223353 COG0276, HemH, Protoheme ferro-lyase (ferrochelatase) [Coenzyme
metabolism].
Length = 320
Score = 29.5 bits (67), Expect = 0.65
Identities = 9/27 (33%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 45 KKLAEKLGLKDSQVKIWFQNR--RMKW 69
+ +AE LGL + + + FQ+R W
Sbjct: 214 RLIAEALGLPEEEYDLTFQSRFGPEPW 240
>gnl|CDD|241266 cd01233, PH_KIFIA_KIFIB, KIFIA and KIFIB protein pleckstrin
homology (PH) domain. The kinesin-3 family motors KIFIA
(Caenorhabditis elegans homolog unc-104) and KIFIB
transport synaptic vesicle precursors that contain
synaptic vesicle proteins, such as synaptophysin,
synaptotagmin and the small GTPase RAB3A, but they do
not transport organelles that contain plasma membrane
proteins. They have a N-terminal motor domain, followed
by a coiled-coil domain, and a C-terminal PH domain.
KIF1A adopts a monomeric form in vitro, but acts as a
processive dimer in vivo. KIF1B has alternatively
spliced isoforms distinguished by the presence or
absence of insertion sequences in the conserved
amino-terminal region of the protein; this results in
their different motor activities. KIF1A and KIF1B bind
to RAB3 proteins through the adaptor protein
mitogen-activated protein kinase (MAPK) -activating
death domain (MADD; also calledDENN), which was first
identified as a RAB3 guanine nucleotide exchange factor
(GEF). PH domains have diverse functions, but in general
are involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from other
PIP-binding domains by their specific high-affinity
binding to PIPs with two vicinal phosphate groups:
PtdIns(3,4)P2, PtdIns(4,5)P2 or PtdIns(3,4,5)P3 which
results in targeting some PH domain proteins to the
plasma membrane. A few display strong specificity in
lipid binding. Any specificity is usually determined by
loop regions or insertions in the N-terminus of the
domain, which are not conserved across all PH domains.
PH domains are found in cellular signaling proteins such
as serine/threonine kinase, tyrosine kinases, regulators
of G-proteins, endocytotic GTPases, adaptors, as well as
cytoskeletal associated molecules and in lipid
associated enzymes.
Length = 111
Score = 28.3 bits (64), Expect = 0.79
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 99 SDADCD-RPKIDLSNVNIDYDEEEEDDLMRPKTKFT 133
S+ D D R I+LS ++Y ++E L RP F
Sbjct: 47 SEKDGDERGVINLSTARVEYSPDQEALLGRPNV-FA 81
>gnl|CDD|234585 PRK00035, hemH, ferrochelatase; Reviewed.
Length = 333
Score = 28.6 bits (65), Expect = 1.4
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 11/45 (24%)
Query: 36 QKYISKPDR---------KKLAEKLGLKDSQVKIWFQNR--RMKW 69
Q+YI K D + LAE LGL D + +Q+R W
Sbjct: 201 QRYIDKGDPYQQQCEETARLLAEALGLPDEDYDLTYQSRFGPEPW 245
>gnl|CDD|233317 TIGR01218, Gpos_tandem_5TM, tandem five-transmembrane protein.
Members of this family of proteins, with average length
of 210, have no invariant residues but five predicted
transmembrane segments. Strangely, most members occur in
groups of consecutive paralogous genes. A striking
example is a set of eleven encoded consecutively,
head-to-tail, in Staphylococcus aureus strain COL.
Length = 208
Score = 28.0 bits (63), Expect = 1.6
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 37 KYISKPDRKKLAEKLGLKDSQVKIWFQNRRMK 68
YI+K ++KKL +L + + KI + K
Sbjct: 114 IYINKKNKKKLYNRLPNNNKRYKIKIRPTSFK 145
>gnl|CDD|217203 pfam02724, CDC45, CDC45-like protein. CDC45 is an essential gene
required for initiation of DNA replication in S.
cerevisiae, forming a complex with MCM5/CDC46.
Homologues of CDC45 have been identified in human, mouse
and smut fungus among others.
Length = 583
Score = 28.4 bits (64), Expect = 1.6
Identities = 17/61 (27%), Positives = 25/61 (40%), Gaps = 10/61 (16%)
Query: 102 DCDRPKIDLSNVNID---------YDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEEI 152
D RP +L NV EEE D R + D E + + E+ ++DEE
Sbjct: 82 DSHRP-WNLDNVFGSDQVVIFDDGDIEEELQDEPRYDDAYRDLEEDDDDDEESDEEDEES 140
Query: 153 N 153
+
Sbjct: 141 S 141
>gnl|CDD|217503 pfam03344, Daxx, Daxx Family. The Daxx protein (also known as the
Fas-binding protein) is thought to play a role in
apoptosis, but precise role played by Daxx remains to be
determined. Daxx forms a complex with Axin.
Length = 715
Score = 28.3 bits (63), Expect = 1.7
Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 6/85 (7%)
Query: 72 SKERELLANGGSREQTLPNK----NNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMR 127
K +E G S + P+K + +P ++ + + + + +EEEE+
Sbjct: 404 RKRQERERQGTSSRSSDPSKASSTSGESPSMASQESEEEESVEEEEEEEEEEEEEEQE-- 461
Query: 128 PKTKFTDNEAESSEVEDDGDDDEEI 152
+ + ++E E EVE D +EE+
Sbjct: 462 SEEEEGEDEEEEEEVEADNGSEEEM 486
>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase
chain; Provisional.
Length = 1033
Score = 28.2 bits (63), Expect = 1.9
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 111 SNVNIDYDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEE 151
+ N + DEEE + + R +D++ +E ED+ ++D+E
Sbjct: 7 TQANEEEDEEELEAVARSAGSDSDDDEVPAEDEDEDEEDDE 47
>gnl|CDD|215628 PLN03196, PLN03196, MOC1-like protein; Provisional.
Length = 487
Score = 28.1 bits (63), Expect = 1.9
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 115 IDYDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDE 150
I+ +E E M K + +E+ S E EDD DDDE
Sbjct: 444 IEGEEMEPLFSMGGKLEMPGSESVSDE-EDDDDDDE 478
>gnl|CDD|227466 COG5137, COG5137, Histone chaperone involved in gene silencing
[Transcription / Chromatin structure and dynamics].
Length = 279
Score = 28.0 bits (62), Expect = 2.0
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 114 NIDYDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEE 151
NI +D +E++D P DNE E E DG ++EE
Sbjct: 155 NIVWDNDEDNDEAPPAQPDVDNEEEERLEESDGREEEE 192
Score = 26.9 bits (59), Expect = 4.6
Identities = 21/87 (24%), Positives = 32/87 (36%), Gaps = 7/87 (8%)
Query: 74 ERELLANGGSREQTLPNKNNPN------PDLSDADCDRPKIDLSNVNIDYDEEEEDDLMR 127
ERE+LA + +N P D D + + L + +EE+E+
Sbjct: 141 EREILAEKPRVTRFNIVWDNDEDNDEAPPAQPDVD-NEEEERLEESDGREEEEDEEVGSD 199
Query: 128 PKTKFTDNEAESSEVEDDGDDDEEINV 154
+ E E E +G DD E V
Sbjct: 200 SYGEGNRELNEEEEEEAEGSDDGEDVV 226
>gnl|CDD|236615 PRK09709, PRK09709, exonuclease VIII; Reviewed.
Length = 877
Score = 28.4 bits (63), Expect = 2.0
Identities = 12/53 (22%), Positives = 26/53 (49%)
Query: 93 NPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFTDNEAESSEVEDD 145
NP+P++ D C R + + ++++++ +P D +A + VE D
Sbjct: 368 NPDPEIVDIACGRSSAPMPQRVTEEGKQDDEEKPQPSGTTADEQATAETVEPD 420
>gnl|CDD|218115 pfam04502, DUF572, Family of unknown function (DUF572). Family of
eukaryotic proteins with undetermined function.
Length = 321
Score = 27.8 bits (62), Expect = 2.3
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 118 DEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEE 151
+EEEED+ + F E DD D +++
Sbjct: 186 EEEEEDEALIKSLSFGPETEEDRRRADDEDSEDD 219
>gnl|CDD|226920 COG4547, CobT, Cobalamin biosynthesis protein CobT
(nicotinate-mononucleotide:5, 6-dimethylbenzimidazole
phosphoribosyltransferase) [Coenzyme metabolism].
Length = 620
Score = 27.9 bits (62), Expect = 2.5
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 5/82 (6%)
Query: 75 RELLANGGSREQTLPNKNNPNPDLSDADCDRPKIDLSNVNIDYDEEEEDDLMRPKTKFTD 134
R++L + E+T + + D D D D+P + + + E D+ + + TD
Sbjct: 210 RDMLGSMDMAEETGDDGIEEDADEEDGDDDQPDNNEDSEAGREESEGSDESEEDEAEATD 269
Query: 135 NEAESSEVE-----DDGDDDEE 151
E E E++ +D + DE
Sbjct: 270 GEGEEGEMDAAEASEDSESDES 291
>gnl|CDD|185603 PTZ00415, PTZ00415, transmission-blocking target antigen s230;
Provisional.
Length = 2849
Score = 27.7 bits (61), Expect = 3.5
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 120 EEEDDLMRPKTKFTDNEAESSEVEDDGDDDEE 151
EED R D++ + E +DD +DDEE
Sbjct: 141 AEEDMSPRDNFVIDDDDEDEDEDDDDEEDDEE 172
>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 = 24.8 bits (55), Expect = 5.0
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 38 YISKPDRKKLAEKLGLKDSQVKIWFQNRRM 67
Y S+ ++ +LA + GL Q+ WF N R
Sbjct: 10 YPSEEEKSELARQTGLSRKQIDNWFINARR 39
>gnl|CDD|227771 COG5484, COG5484, Uncharacterized conserved protein [Function
unknown].
Length = 279
Score = 26.8 bits (59), Expect = 5.3
Identities = 22/70 (31%), Positives = 30/70 (42%), Gaps = 9/70 (12%)
Query: 26 RKGLEKRFQIQK-YISKPDRKKLAEKLGLKDSQVKIWFQNRRMKWR------NSKERELL 78
R +KR +K Y+ K +AEKLG+ + +K W RR W KER+
Sbjct: 3 RPRNDKRIIAKKDYLKGMKLKDIAEKLGVSPNTIKSW--KRRDGWSATDEVEAQKERKKG 60
Query: 79 ANGGSREQTL 88
A G T
Sbjct: 61 APGNKYNHTK 70
>gnl|CDD|214330 CHL00001, rpoB, RNA polymerase beta subunit.
Length = 1070
Score = 26.4 bits (59), Expect = 7.6
Identities = 12/35 (34%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 20 VFSDLQRKGLEKRFQIQKY-ISKPDRKKLAEKLGL 53
VFS+ K L+K+F Q+ + + R+ + KL L
Sbjct: 238 VFSESLCKELQKKFFQQRCELGRIGRRNMNRKLNL 272
>gnl|CDD|130366 TIGR01299, synapt_SV2, synaptic vesicle protein SV2. This model
describes a tightly conserved subfamily of the larger
family of sugar (and other) transporters described by
PFAM model pfam00083. Members of this subfamily include
closely related forms SV2A and SV2B of synaptic vesicle
protein from vertebrates and a more distantly related
homolog (below trusted cutoff) from Drosophila
melanogaster. Members are predicted to have two sets of
six transmembrane helices.
Length = 742
Score = 26.5 bits (58), Expect = 7.7
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 8/43 (18%)
Query: 118 DEEEEDDLMRPKTKFTDNEAESSEVEDDG--------DDDEEI 152
DE+++DD P ++ EA E E + D+D+EI
Sbjct: 51 DEDDDDDFPAPADGYSRGEAADDEEEGEASSDATEGHDEDDEI 93
>gnl|CDD|222792 PHA00435, PHA00435, capsid assembly protein.
Length = 306
Score = 26.0 bits (57), Expect = 8.7
Identities = 15/41 (36%), Positives = 20/41 (48%)
Query: 113 VNIDYDEEEEDDLMRPKTKFTDNEAESSEVEDDGDDDEEIN 153
V I D EEE+ + + + E ES E E GD EE+
Sbjct: 73 VRISEDGEEEEVEEGEEDEEEEGEEESEEFEPLGDTPEELT 113
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
0.311 0.131 0.373
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: 8,174,729
Number of extensions: 751846
Number of successful extensions: 1138
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1043
Number of HSP's successfully gapped: 113
Length of query: 155
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 66
Effective length of database: 6,990,096
Effective search space: 461346336
Effective search space used: 461346336
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 55 (24.9 bits)