RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11812
(152 letters)
>gnl|CDD|224151 COG1230, CzcD, Co/Zn/Cd efflux system component [Inorganic ion
transport and metabolism].
Length = 296
Score = 87.0 bits (216), Expect = 2e-21
Identities = 43/125 (34%), Positives = 72/125 (57%), Gaps = 5/125 (4%)
Query: 1 MICSIIVYLTDASVAKYVDPILSIISALLLLLFSYPFMRDAGYILLQTIPNHIDIDSLCT 60
+I +I++ T S ++DPILSI+ ALL+L ++P ++++ ILL+ +P IDID +
Sbjct: 173 IIAAIVIRFTGWS---WLDPILSIVIALLILSSAWPLLKESLNILLEGVPEGIDIDKVRE 229
Query: 61 ELVEAFPNILNVHEIHVWQLTSNKTVSTAHIIFLNPQDYLCCTHQLIDFFYQQ-GISHVT 119
L P + +VH++HVW +T + T H++ D Q++ ++ GI HVT
Sbjct: 230 AL-LRIPGVASVHDLHVWSITGGEHALTLHVVVDEVADADAALDQIVRRLLEKYGIEHVT 288
Query: 120 IQPEF 124
IQ E
Sbjct: 289 IQLET 293
>gnl|CDD|235130 PRK03557, PRK03557, zinc transporter ZitB; Provisional.
Length = 312
Score = 72.1 bits (177), Expect = 8e-16
Identities = 37/110 (33%), Positives = 59/110 (53%), Gaps = 6/110 (5%)
Query: 18 VDPILSIISALLLLLFSYPFMRDAGYILLQTIPNHIDIDSLCTELVEAFPNILNVHEIHV 77
DPILSI+ ++L+L ++ ++++ LL+ P +DI L L P + NVH +HV
Sbjct: 185 ADPILSILVSVLVLRSAWRLLKESVNELLEGAPVSLDIAELKRRLCREIPEVRNVHHVHV 244
Query: 78 WQLTSNKTVSTAHIIFLNPQDYLCCTHQLIDFF---YQQGISHVTIQPEF 124
W + K V T H+ + P D+ ++ D+ YQ I H TIQ E+
Sbjct: 245 WMV-GEKPVMTLHVQVIPPHDHDALLDRIQDYLMHHYQ--IEHATIQMEY 291
>gnl|CDD|233348 TIGR01297, CDF, cation diffusion facilitator family transporter.
This model describes a broadly distributed family of
transporters, a number of which have been shown to
transport divalent cations of cobalt, cadmium and/or
zinc. The family has six predicted transmembrane
domains. Members of the family are variable in length
because of variably sized inserts, often containing
low-complexity sequence [Transport and binding proteins,
Cations and iron carrying compounds].
Length = 268
Score = 68.4 bits (168), Expect = 1e-14
Identities = 27/116 (23%), Positives = 57/116 (49%), Gaps = 12/116 (10%)
Query: 16 KYVDPILSIISALLLLLFSYPFMRDAGYILLQTIPNHIDIDSLCTELVEAFPNILNVHEI 75
+ DPI +++ +LL+L ++ ++++ +LL P+ D++ + + + P + VH++
Sbjct: 155 HWADPIAALLISLLILYTAFRLLKESINVLLDAAPDEEDLEEIKKAI-LSIPGVKGVHDL 213
Query: 76 HVWQLTSNKTVSTAHIIF---LNPQDYLCCTHQ-----LIDFFYQQGISHVTIQPE 123
H+W++ K H++ L+ + + L GI HVTIQ E
Sbjct: 214 HIWRIGPGKLFLDVHVVVDPDLDLKQAHDIALEIEREILKRHP---GIEHVTIQVE 266
>gnl|CDD|216561 pfam01545, Cation_efflux, Cation efflux family. Members of this
family are integral membrane proteins, that are found to
increase tolerance to divalent metal ions such as
cadmium, zinc, and cobalt. These proteins are thought to
be efflux pumps that remove these ions from cells.
Length = 273
Score = 56.5 bits (137), Expect = 2e-10
Identities = 33/134 (24%), Positives = 60/134 (44%), Gaps = 12/134 (8%)
Query: 1 MICSIIVYLTDASVAKYVDPILSIISALLLLLFSYPFMRDAGYILLQTIPNHIDIDSLCT 60
+I +++ LT DP+ S++ ALL+L ++++ LL P+ +D +
Sbjct: 145 LIGLLLILLTGLP---IADPLASLLIALLILYTGLRLLKESLSELLGASPDPELVDEI-R 200
Query: 61 ELVEAFPNILNVHEIHVWQLTSNKTVSTAHIIFLNPQDYLCCTHQLIDFFYQQ------G 114
+ +E P +L VH++ VW+ V HI +P + H++ D + G
Sbjct: 201 DALEKLPGVLGVHDLRVWKSGPKYFVD-IHIEV-DPDLTVEEAHEIADEIERALKEKFPG 258
Query: 115 ISHVTIQPEFYEVR 128
I+ VTI E
Sbjct: 259 IADVTIHVEPAPEV 272
>gnl|CDD|236390 PRK09136, PRK09136, 5'-methylthioadenosine phosphorylase;
Validated.
Length = 245
Score = 28.8 bits (65), Expect = 1.0
Identities = 7/27 (25%), Positives = 11/27 (40%), Gaps = 7/27 (25%)
Query: 100 LCCTHQLIDF-------FYQQGISHVT 119
L Q+ID+ F++ VT
Sbjct: 97 LVVPDQIIDYTWGRKSTFFEGDGEEVT 123
>gnl|CDD|215450 PLN02837, PLN02837, threonine-tRNA ligase.
Length = 614
Score = 27.6 bits (61), Expect = 3.0
Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 107 IDFFYQQGISHVTIQPEFYEVRLKVCP-HIVNAVDRRLLKPY 147
+DF+ + + I+ E Y++R CP HI+ V +R L Y
Sbjct: 286 LDFYKENMYDQMDIEDELYQLRPMNCPYHIL--VYKRKLHSY 325
>gnl|CDD|235542 PRK05644, gyrB, DNA gyrase subunit B; Validated.
Length = 638
Score = 27.0 bits (61), Expect = 4.3
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 10/42 (23%)
Query: 6 IVYLTDASVAKYVDPILSIISALLLLLFSYPFMR---DAGYI 44
I+ +TDA V D + I LLL F Y +MR +AGY+
Sbjct: 495 IIIMTDADV----DG--AHIRTLLLTFF-YRYMRPLIEAGYV 529
>gnl|CDD|219927 pfam08601, PAP1, Transcription factor PAP1. The transcription
factor Pap1 regulates antioxidant-gene transcription in
response to H2O2. This region is cysteine rich.
Alkylation of cysteine residues following treatment with
a cysteine alkylating agent can mask the accessibility
of the nuclear exporter Crm1, triggering nuclear
accumulation and Pap1 dependent transcriptional
expression.
Length = 344
Score = 26.8 bits (59), Expect = 5.4
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 53 IDIDSLCTEL 62
IDID LC+EL
Sbjct: 310 IDIDGLCSEL 319
>gnl|CDD|188060 TIGR00531, BCCP, acetyl-CoA carboxylase, biotin carboxyl carrier
protein. This model is designed to identify biotin
carboxyl carrier protein as a peptide of acetyl-CoA
carboxylase. Scoring below the trusted cutoff is a
related protein encoded in a region associated with
polyketide synthesis in the prokaryote Saccharopolyspora
hirsuta, and a reported chloroplast-encoded biotin
carboxyl carrier protein that may be highly derived from
the last common ancestral sequence. Scoring below the
noise cutoff are biotin carboxyl carrier domains of
other enzymes such as pyruvate carboxylase.The gene name
is accB or fabE [Fatty acid and phospholipid metabolism,
Biosynthesis].
Length = 156
Score = 26.3 bits (58), Expect = 5.4
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 104 HQLIDFFYQQGISHVTIQPEFYEVRLK 130
+LI + GI+ + ++ E +EVRL
Sbjct: 7 KELIKLIEESGITELELKEEEFEVRLS 33
>gnl|CDD|216316 pfam01130, CD36, CD36 family. The CD36 family is thought to be a
novel class of scavenger receptors. There is also
evidence suggesting a possible role in signal
transduction. CD36 is involved in cell adhesion.
Length = 460
Score = 26.4 bits (59), Expect = 6.4
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 6 IVYLTDASVAKYVDPILS-IISALLLLLFSYPFMRD-AGYIL 45
I L A+ AK + P+L +I+A L L PF+ G +L
Sbjct: 130 IPMLGAAATAKSMSPLLRLLINAALKSLGEKPFVTRTVGELL 171
>gnl|CDD|233254 TIGR01059, gyrB, DNA gyrase, B subunit. This model describes the
common type II DNA topoisomerase (DNA gyrase). Two
apparently independently arising families, one in the
Proteobacteria and one in Gram-positive lineages, are
both designated toposisomerase IV. Proteins scoring
above the noise cutoff for this model and below the
trusted cutoff for topoisomerase IV models probably
should be designated GyrB [DNA metabolism, DNA
replication, recombination, and repair].
Length = 654
Score = 26.2 bits (58), Expect = 8.6
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 10/42 (23%)
Query: 6 IVYLTDASVAKYVDPILSIISALLLLLFSYPFMRD---AGYI 44
I+ +TDA V S I LLL F Y +MR GY+
Sbjct: 488 IIIMTDADVDG------SHIRTLLLTFF-YRYMRPLIENGYV 522
>gnl|CDD|132738 cd06940, NR_LBD_REV_ERB, The ligand binding domain of REV-ERB
receptors, members of the nuclear receptor superfamily.
The ligand binding domain (LBD) of REV-ERB receptors:
REV-ERBs are transcriptional regulators belonging to the
nuclear receptor superfamily. They regulate a number of
physiological functions including the circadian rhythm,
lipid metabolism, and cellular differentiation. The LBD
domain of REV-ERB is unusual in the nuclear receptor
family by lacking the AF-2 region that is responsible
for coactivator interaction. REV-ERBs act as
constitutive repressors because of their inability to
bind coactivators. REV-ERB receptors can bind to two
classes of DNA response elements as either a monomer or
heterodimer, indicating functional diversity. When bound
to the DNA, they recruit corepressors (NcoR/histone
deacetylase 3) to the promoter, resulting in repression
of the target gene. The porphyrin heme has been
demonstrated to function as a ligand for REV-ERB. Like
other members of the nuclear receptor (NR) superfamily
of ligand-activated transcription factors, REV-ERB
receptors have a central well conserved DNA binding
domain (DBD), a variable N-terminal domain, a
non-conserved hinge and a C-terminal ligand binding
domain (LBD).
Length = 189
Score = 25.9 bits (57), Expect = 8.9
Identities = 9/43 (20%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 43 YILLQTIPNHIDIDSLCTELVEAFPNILNVHEIHVWQLTSNKT 85
++ + PN I T+L+ P++ ++ +H +L + K
Sbjct: 150 TLIAKNHPNEPSI---FTKLLLKLPDLRTLNNLHSEKLLAFKV 189
>gnl|CDD|212047 cd11477, SLC5sbd_u1, Uncharacterized bacterial solute carrier 5
subfamily; putative solute-binding domain. SLC5 (also
called the sodium/glucose cotransporter family or solute
sodium symporter family) is a family of proteins that
co-transports Na+ with sugars, amino acids, inorganic
ions or vitamins. Prokaryotic members of this family
include Vibrio parahaemolyticus glucose/galactose
(vSGLT), and Escherichia coli proline (PutP) and
pantothenate (PutF) cotransporters. One member of the
SLC5 family, human SGLT3, has been characterized as a
glucose sensor and not a transporter. This subfamily
belongs to the solute carrier 5 (SLC5) transporter
family.
Length = 495
Score = 26.0 bits (58), Expect = 9.2
Identities = 14/54 (25%), Positives = 20/54 (37%)
Query: 1 MICSIIVYLTDASVAKYVDPILSIISALLLLLFSYPFMRDAGYILLQTIPNHID 54
MI SIIV L + V K L ++ L +L S + T +
Sbjct: 430 MIASIIVGLLVSVVLKIGLGELFLLQFPLPVLLSLVVWLAVTLLTPPTDEETLK 483
>gnl|CDD|218916 pfam06157, DUF973, Protein of unknown function (DUF973). This
family consists of several hypothetical archaeal
proteins of unknown function.
Length = 283
Score = 25.8 bits (57), Expect = 9.9
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 21 ILSIISALLLLLFSYPFMRDAGYILLQT 48
I +I L+LL+ + +R IL T
Sbjct: 49 IFLLIIGLVLLIIGFIRLRSGFNILSST 76
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
0.328 0.141 0.434
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,742,680
Number of extensions: 689631
Number of successful extensions: 1126
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1120
Number of HSP's successfully gapped: 41
Length of query: 152
Length of database: 10,937,602
Length adjustment: 88
Effective length of query: 64
Effective length of database: 7,034,450
Effective search space: 450204800
Effective search space used: 450204800
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 55 (24.9 bits)