RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11337
(155 letters)
>gnl|CDD|233514 TIGR01658, EYA-cons_domain, eyes absent protein conserved domain.
This domain is common to all eyes absent (EYA) homologs.
Metazoan EYA's also contain a variable N-terminal domain
consisting largely of low-complexity sequences.
Length = 274
Score = 192 bits (489), Expect = 3e-62
Identities = 60/156 (38%), Positives = 82/156 (52%), Gaps = 16/156 (10%)
Query: 16 CGLLGPAKREEWLQLRAEIESVTDNWLSLAIKC---------------LTLINQRPSCTN 60
LL P E +L +E + TD WLS A+K L I+ R +C N
Sbjct: 119 GPLLDPESMEALDELYSETDVYTDRWLSSALKFLEQCSCVEESSDGTSLIEISSRDNCIN 178
Query: 61 VIVITTQLIPALSKIMLFGLSGIFDVENIYSSTKIGKDSCFERIVTRFGR-KCTYVVIGD 119
V+V + QLIP+L+K +LF L IF +EN+YSS K+GK CF+ I RFG K + IGD
Sbjct: 179 VLVTSGQLIPSLAKCLLFRLDTIFRIENVYSSIKVGKLQCFKWIKERFGHPKVRFCAIGD 238
Query: 120 GQDEEAAAKQRNFPFWRISSRSDLAALYHALDNGFL 155
G +E AA+ N+PF +I D + + L L
Sbjct: 239 GWEECTAAQAMNWPFVKIDLHPDSSHRFPGLTLKTL 274
>gnl|CDD|168320 PRK05968, PRK05968, hypothetical protein; Provisional.
Length = 389
Score = 32.4 bits (74), Expect = 0.076
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 7/46 (15%)
Query: 83 IFDVENIYSSTKIGKDSCFERIVTRFGRKCTYVVIGDGQDEEAAAK 128
I V ++Y FE I+ R G + YV DG+DEEA AK
Sbjct: 105 IVAVRHVYPDAF----RLFETILKRMGVEVDYV---DGRDEEAVAK 143
>gnl|CDD|223699 COG0626, MetC, Cystathionine beta-lyases/cystathionine
gamma-synthases [Amino acid transport and metabolism].
Length = 396
Score = 31.0 bits (71), Expect = 0.21
Identities = 14/31 (45%), Positives = 21/31 (67%)
Query: 101 FERIVTRFGRKCTYVVIGDGQDEEAAAKQRN 131
FE+I+ +FG + T+V GD + EAA K+ N
Sbjct: 119 FEKILQKFGVEVTFVDPGDDEALEAAIKEPN 149
>gnl|CDD|151724 pfam11283, DUF3084, Protein of unknown function (DUF3084). This
bacterial family of proteins has no known function.
Length = 79
Score = 27.6 bits (62), Expect = 0.98
Identities = 19/48 (39%), Positives = 29/48 (60%), Gaps = 7/48 (14%)
Query: 49 LTLINQRPSCTNVIV--ITTQLIPALSKIMLFGLS-----GIFDVENI 89
L+L N RP T V+V +T LI AL+ +LF +S G+F +++I
Sbjct: 32 LSLFNLRPKQTAVLVTVLTGSLISALTLGILFAVSRSLRVGLFQLDDI 79
>gnl|CDD|215448 PLN02834, PLN02834, 3-dehydroquinate synthase.
Length = 433
Score = 29.0 bits (65), Expect = 1.1
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 102 ERIVTRFGRKCTYV-----VIGDGQDEEAAAKQRNFPFWRI 137
+ + +R R+CT+V VIGD AA+ QR F +I
Sbjct: 155 KALESRLDRRCTFVALGGGVIGDMCGFAAASYQRGVNFVQI 195
>gnl|CDD|99974 cd03801, GT1_YqgM_like, This family is most closely related to the
GT1 family of glycosyltransferases and named after YqgM
in Bacillus licheniformis about which little is known.
Glycosyltransferases catalyze the transfer of sugar
moieties from activated donor molecules to specific
acceptor molecules, forming glycosidic bonds. The
acceptor molecule can be a lipid, a protein, a
heterocyclic compound, or another carbohydrate residue.
This group of glycosyltransferases is most closely
related to the previously defined glycosyltransferase
family 1 (GT1). The members of this family may transfer
UDP, ADP, GDP, or CMP linked sugars. The diverse
enzymatic activities among members of this family
reflect a wide range of biological functions. The
protein structure available for this family has the GTB
topology, one of the two protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility. The members of this family are found
mainly in certain bacteria and archaea.
Length = 374
Score = 28.5 bits (64), Expect = 1.3
Identities = 13/60 (21%), Positives = 19/60 (31%), Gaps = 12/60 (20%)
Query: 101 FERIVTRFGRKCTYVVIGDGQDEEAAAKQRN---------FPFWRISSRSDLAALYHALD 151
++ + V++GDG E F + DL ALY A D
Sbjct: 221 LAKLRKEY-PDVRLVIVGDGPLREELEALAAELGLGDRVTFLGFV--PDEDLPALYAAAD 277
>gnl|CDD|215266 PLN02481, PLN02481, Omega-hydroxypalmitate O-feruloyl transferase.
Length = 436
Score = 28.1 bits (63), Expect = 2.1
Identities = 11/36 (30%), Positives = 19/36 (52%)
Query: 31 RAEIESVTDNWLSLAIKCLTLINQRPSCTNVIVITT 66
+ I+ V D ++ AI + RPS + ++ITT
Sbjct: 338 QDAIKMVNDGYMRSAIDYFEVTRARPSLASTLLITT 373
>gnl|CDD|215096 PLN00192, PLN00192, aldehyde oxidase.
Length = 1344
Score = 28.1 bits (63), Expect = 2.4
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 87 ENIYSSTKIGKDSCFERIVTRFGRKCTYVVIGDGQDE-EAAAKQ 129
+NI S T G + F VTR + +V+ D Q + AA
Sbjct: 651 QNIGSKTIFGPEPLFADEVTRCAGQRIALVVADTQKHADMAANL 694
>gnl|CDD|225929 COG3394, COG3394, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 257
Score = 27.0 bits (60), Expect = 4.0
Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 4/66 (6%)
Query: 49 LTLINQRPSCTNVIVITTQLIPALSKIMLFGLSGIFDVENIYSSTKIGKDSCFERIVTRF 108
L L +P + L L L G D+E + + + +ER V F
Sbjct: 62 LNLTLGKPLTNMPELTDENGEFGLKWYWLRALEGALDLEEVTAELI----AQYERFVELF 117
Query: 109 GRKCTY 114
GR ++
Sbjct: 118 GRTPSH 123
>gnl|CDD|148152 pfam06374, NDUF_C2, NADH-ubiquinone oxidoreductase subunit b14.5b
(NDUFC2). This family consists of several
NADH-ubiquinone oxidoreductase subunit b14.5b proteins
(EC:1.6.5.3).
Length = 117
Score = 26.3 bits (58), Expect = 4.9
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 2 SVPPPNETTARLDACGLLG 20
S+PPP RL ACGLLG
Sbjct: 17 SLPPPKLWDPRLIACGLLG 35
>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like. Rab23-like
subfamily. Rab23 is a member of the Rab family of small
GTPases. In mouse, Rab23 has been shown to function as a
negative regulator in the sonic hedgehog (Shh) signaling
pathway. Rab23 mediates the activity of Gli2 and Gli3,
transcription factors that regulate Shh signaling in the
spinal cord, primarily by preventing Gli2 activation in
the absence of Shh ligand. Rab23 also regulates a step
in the cytoplasmic signal transduction pathway that
mediates the effect of Smoothened (one of two integral
membrane proteins that are essential components of the
Shh signaling pathway in vertebrates). In humans, Rab23
is expressed in the retina. Mice contain an isoform that
shares 93% sequence identity with the human Rab23 and an
alternative splicing isoform that is specific to the
brain. This isoform causes the murine open brain
phenotype, indicating it may have a role in the
development of the central nervous system. GTPase
activating proteins (GAPs) interact with GTP-bound Rab
and accelerate the hydrolysis of GTP to GDP. Guanine
nucleotide exchange factors (GEFs) interact with
GDP-bound Rabs to promote the formation of the GTP-bound
state. Rabs are further regulated by guanine nucleotide
dissociation inhibitors (GDIs), which facilitate Rab
recycling by masking C-terminal lipid binding and
promoting cytosolic localization. Most Rab GTPases
contain a lipid modification site at the C-terminus,
with sequence motifs CC, CXC, or CCX. Lipid binding is
essential for membrane attachment, a key feature of most
Rab proteins. Due to the presence of truncated sequences
in this CD, the lipid modification site is not available
for annotation.
Length = 162
Score = 26.6 bits (59), Expect = 5.1
Identities = 8/23 (34%), Positives = 13/23 (56%)
Query: 121 QDEEAAAKQRNFPFWRISSRSDL 143
++ EA AK+ P +R S + D
Sbjct: 127 EEAEALAKRLQLPLFRTSVKDDF 149
>gnl|CDD|182761 PRK10828, PRK10828, putative oxidoreductase; Provisional.
Length = 183
Score = 26.6 bits (59), Expect = 5.8
Identities = 12/28 (42%), Positives = 13/28 (46%)
Query: 107 RFGRKCTYVVIGDGQDEEAAAKQRNFPF 134
RF I G DE+A K RN PF
Sbjct: 57 RFSALLEQGAIAAGSDEKAIEKARNAPF 84
>gnl|CDD|235635 PRK05878, PRK05878, pyruvate phosphate dikinase; Provisional.
Length = 530
Score = 26.6 bits (59), Expect = 6.8
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 17 GLLGPAKREEWLQLRAEIESVTDNWLS 43
G P + + QLRA IE+V +W S
Sbjct: 149 GSGSPPPDDPYEQLRAAIEAVFASWNS 175
>gnl|CDD|239870 cd04405, RhoGAP_BRCC3-like, RhoGAP_BRCC3-like: RhoGAP
(GTPase-activator protein [GAP] for Rho-like small
GTPases) domain of BRCC3-like proteins. This subgroup
also contains two groups of closely related proteins,
BRCC3 and DEPDC7, which both contain a C-terminal
RhoGAP-like domain and an N-terminal DEP (Disheveled,
Egl-10, and Pleckstrin) domain. The function(s) of
BRCC3 and DEPDC7 are unknown. Small GTPases cluster
into distinct families, and all act as molecular
switches, active in their GTP-bound form but inactive
when GDP-bound. The Rho family of GTPases activates
effectors involved in a wide variety of developmental
processes, including regulation of cytoskeleton
formation, cell proliferation and the JNK signaling
pathway. GTPases generally have a low intrinsic GTPase
hydrolytic activity but there are family-specific
groups of GAPs that enhance the rate of GTP hydrolysis
by several orders of magnitude.
Length = 235
Score = 26.1 bits (58), Expect = 7.7
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 30 LRAEIESVTDNWLSLAIKCL 49
++ +S D+WL A+ CL
Sbjct: 60 VKLFSKSQLDHWLLSAMDCL 79
>gnl|CDD|168945 PRK07414, PRK07414, cob(I)yrinic acid a,c-diamide
adenosyltransferase; Validated.
Length = 178
Score = 25.9 bits (57), Expect = 8.3
Identities = 18/67 (26%), Positives = 31/67 (46%), Gaps = 13/67 (19%)
Query: 22 AKREEWLQLRAEIES-----VTDNWLSLAI--------KCLTLINQRPSCTNVIVITTQL 68
A +E W +A ++ V + LSLAI + L + +RPS +VI+ ++
Sbjct: 99 ALQELWQYTQAVVDEGRYSLVVLDELSLAIQFGLIPETEVLEFLEKRPSHVDVILTGPEM 158
Query: 69 IPALSKI 75
+L I
Sbjct: 159 PESLLAI 165
>gnl|CDD|222206 pfam13535, ATP-grasp_4, ATP-grasp domain. This family includes a
diverse set of enzymes that possess ATP-dependent
carboxylate-amine ligase activity.
Length = 183
Score = 25.7 bits (57), Expect = 9.6
Identities = 13/52 (25%), Positives = 24/52 (46%), Gaps = 13/52 (25%)
Query: 114 YVVIGDGQDEEAAAKQRNFPF-------------WRISSRSDLAALYHALDN 152
+ ++ D +D +AAA++ FP +R+ S ++L A AL
Sbjct: 22 FFLVDDEEDLDAAAEEIGFPVVLKPRDGAGSLGVFRVDSAAELEAALAALAA 73
>gnl|CDD|237994 cd00027, BRCT, Breast Cancer Suppressor Protein (BRCA1),
carboxy-terminal domain. The BRCT domain is found within
many DNA damage repair and cell cycle checkpoint
proteins. The unique diversity of this domain
superfamily allows BRCT modules to interact forming
homo/hetero BRCT multimers, BRCT-non-BRCT interactions,
and interactions within DNA strand breaks.
Length = 72
Score = 24.6 bits (54), Expect = 9.7
Identities = 7/38 (18%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 103 RIVTRFGRKCTYVVIGD--GQDEEAAAKQRNFPFWRIS 138
++ + +K T+V++G G + A + P
Sbjct: 28 KVTSSVSKKTTHVIVGSDAGPKKLLKAIKLGIPIVTPE 65
>gnl|CDD|240419 PTZ00440, PTZ00440, reticulocyte binding protein 2-like protein;
Provisional.
Length = 2722
Score = 26.3 bits (58), Expect = 9.8
Identities = 18/101 (17%), Positives = 34/101 (33%), Gaps = 17/101 (16%)
Query: 22 AKREEWLQLRAEIESVTDNWLSLAIKCLTLINQ-------------RPSCTNVIVITTQL 68
+++EW ++EI+ + N+ L K LI + + + Q
Sbjct: 988 KEKDEWEHFKSEIDKLNVNYNILNKKIDDLIKKQHDDIIELIDKLIKEKGKEIEEKVDQY 1047
Query: 69 IPALSKIMLFGLSGIF---DVENIYSSTKIGKDSCFERIVT 106
I L K+ LS D++ + + E V
Sbjct: 1048 ISLLEKMKTK-LSSFHFNIDIKKYKNPKIKEEIKLLEEKVE 1087
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
0.322 0.137 0.416
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,884,104
Number of extensions: 693309
Number of successful extensions: 610
Number of sequences better than 10.0: 1
Number of HSP's gapped: 607
Number of HSP's successfully gapped: 23
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (24.9 bits)