RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8444
(248 letters)
>gnl|CDD|215916 pfam00431, CUB, CUB domain.
Length = 110
Score = 141 bits (357), Expect = 5e-43
Identities = 48/110 (43%), Positives = 69/110 (62%)
Query: 10 CKYEITAPNGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVV 69
C +T +G I +PN+P+ YP ++C+W PG+RI L FQ+F+LE H C YD+V
Sbjct: 1 CGGVLTESSGSITSPNYPNSYPPNKDCVWTIRAPPGYRISLTFQDFDLEDHDECGYDYVE 60
Query: 70 MYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATH 119
+ DG S LGRFCG P I + SNQ+ + F SD+S+ ++GF AT+
Sbjct: 61 IRDGLPSSSPLLGRFCGSGPPEDIRSTSNQMTIKFVSDSSISKRGFKATY 110
Score = 86.2 bits (214), Expect = 1e-21
Identities = 36/93 (38%), Positives = 48/93 (51%), Gaps = 6/93 (6%)
Query: 123 CGGHLQAQDYKRHLYSHARYGHDNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEY 182
CGG L + + S ++Y + DC WTI A PG + LTF FD+E + +C Y
Sbjct: 1 CGGVLT--ESSGSITSPN--YPNSYPPNKDCVWTIRAPPGYRISLTFQDFDLEDHDECGY 56
Query: 183 DYVEVYSGLDSSVSQASYGRFCGTTVALKFQSF 215
DYVE+ GL SS GRFCG+ +S
Sbjct: 57 DYVEIRDGLPSSSPL--LGRFCGSGPPEDIRST 87
>gnl|CDD|238001 cd00041, CUB, CUB domain; extracellular domain; present in proteins
mostly known to be involved in development; not found in
prokaryotes, plants and yeast.
Length = 113
Score = 134 bits (339), Expect = 3e-40
Identities = 51/113 (45%), Positives = 74/113 (65%), Gaps = 1/113 (0%)
Query: 10 CKYEITAP-NGVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHV 68
C +TA +G I +PN+P+ YP+ C+W PG+RI+L F++F+LE C+YD++
Sbjct: 1 CGGTLTASTSGTISSPNYPNNYPNNLNCVWTIEAPPGYRIRLTFEDFDLESSPNCSYDYL 60
Query: 69 VMYDGDSPDSLTLGRFCGIKLPYPIITGSNQLYMMFKSDASVQRKGFIATHTT 121
+YDG S S LGRFCG LP PII+ N L + F+SD+SV +GF AT++
Sbjct: 61 EIYDGPSTSSPLLGRFCGSTLPPPIISSGNSLTVRFRSDSSVTGRGFKATYSA 113
Score = 84.4 bits (209), Expect = 6e-21
Identities = 39/92 (42%), Positives = 52/92 (56%), Gaps = 5/92 (5%)
Query: 123 CGGHLQAQDYKRHLYSHARYGHDNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEY 182
CGG L A S Y +NY +++C WTIEA PG + LTF FD+ES+ +C Y
Sbjct: 1 CGGTLTASTSGT--ISSPNYP-NNYPNNLNCVWTIEAPPGYRIRLTFEDFDLESSPNCSY 57
Query: 183 DYVEVYSGLDSSVSQASYGRFCGTTVALKFQS 214
DY+E+Y G +S GRFCG+T+ S
Sbjct: 58 DYLEIYDGPSTSSP--LLGRFCGSTLPPPIIS 87
>gnl|CDD|214483 smart00042, CUB, Domain first found in C1r, C1s, uEGF, and bone
morphogenetic protein. This domain is found mostly
among developmentally-regulated proteins. Spermadhesins
contain only this domain.
Length = 102
Score = 124 bits (312), Expect = 2e-36
Identities = 48/102 (47%), Positives = 67/102 (65%), Gaps = 1/102 (0%)
Query: 19 GVIKTPNHPDYYPSKRECIWHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDS 78
G I +PN+P YP+ +C+W PG+RI+L F +F+LE C YD+V +YDG S S
Sbjct: 1 GTITSPNYPQSYPNNLDCVWTIRAPPGYRIELQFTDFDLESSDNCEYDYVEIYDGPSASS 60
Query: 79 LTLGRFCGIKLPYPIIT-GSNQLYMMFKSDASVQRKGFIATH 119
LGRFCG + P P+I+ SN L + F SD+SVQ++GF A +
Sbjct: 61 PLLGRFCGSEAPPPVISSSSNSLTLTFVSDSSVQKRGFSARY 102
Score = 77.4 bits (191), Expect = 2e-18
Identities = 30/63 (47%), Positives = 40/63 (63%), Gaps = 2/63 (3%)
Query: 145 DNYGKSMDCDWTIEAEPGKNVHLTFLTFDIESNKDCEYDYVEVYSGLDSSVSQASYGRFC 204
+Y ++DC WTI A PG + L F FD+ES+ +CEYDYVE+Y G +S GRFC
Sbjct: 10 QSYPNNLDCVWTIRAPPGYRIELQFTDFDLESSDNCEYDYVEIYDGPSASSP--LLGRFC 67
Query: 205 GTT 207
G+
Sbjct: 68 GSE 70
>gnl|CDD|130691 TIGR01630, psiM2_ORF9, phage uncharacterized protein (putative
large terminase), C-terminal domain. This model
represents the C-terminal region of a set of phage
proteins typically about 400-500 amino acids in length,
although some members are considerably shorter. An
article on Methanobacterium phage Psi-M2 (PMID:9791169)
calls the member from that phage, ORF9, a putative large
terminase subunit, and ORF8 a candidate terminase small
subunit. Most proteins in this family have an apparent
P-loop nucleotide-binding sequence toward the N-terminus
[Mobile and extrachromosomal element functions, Prophage
functions].
Length = 142
Score = 29.0 bits (65), Expect = 1.1
Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 7/43 (16%)
Query: 38 WHFTTTPGHRIKLVFQEFELEPHQTCAYDHVVMYDGDSPDSLT 80
F + Q E P + A+D D PD++T
Sbjct: 99 NVFPPNWAPWWPDLIQALEAFPREKAAHD-------DDPDAMT 134
>gnl|CDD|224651 COG1737, RpiR, Transcriptional regulators [Transcription].
Length = 281
Score = 30.0 bits (68), Expect = 1.2
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 195 VSQASYGRFCGTTVALKFQSFRDLRIM 221
VS A+ RF L F+ F + ++
Sbjct: 48 VSPATVVRFA---RKLGFEGFSEFKLA 71
>gnl|CDD|201784 pfam01418, HTH_6, Helix-turn-helix domain, rpiR family. This
domain contains a helix-turn-helix motif. The best
characterized member of this family is Escherichia coli
rpiR, a regulator of the expression of rpiB gene.
Length = 77
Score = 27.7 bits (62), Expect = 1.4
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 3/28 (10%)
Query: 193 SSVSQASYGRFCGTTVALKFQSFRDLRI 220
+ VS+AS RFC L F F DL++
Sbjct: 44 AGVSEASVVRFCRK---LGFSGFSDLKV 68
>gnl|CDD|226643 COG4175, ProV, ABC-type proline/glycine betaine transport system,
ATPase component [Amino acid transport and metabolism].
Length = 386
Score = 29.3 bits (66), Expect = 1.8
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 46 HRIKLVFQEFELEPHQT 62
+I +VFQ F L PH+T
Sbjct: 106 KKISMVFQSFALLPHRT 122
>gnl|CDD|213261 cd03294, ABC_Pro_Gly_Betaine, ATP-binding cassette domain of the
osmoprotectant proline/glycine betaine uptake system.
This family comprises the glycine betaine/L-proline ATP
binding subunit in bacteria and its equivalents in
archaea. This transport system belong to the larger
ATP-Binding Cassette (ABC) transporter superfamily. The
characteristic feature of these transporters is the
obligatory coupling of ATP hydrolysis to substrate
translocation. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 269
Score = 28.4 bits (64), Expect = 3.4
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 46 HRIKLVFQEFELEPHQT 62
+I +VFQ F L PH+T
Sbjct: 102 KKISMVFQSFALLPHRT 118
>gnl|CDD|224051 COG1126, GlnQ, ABC-type polar amino acid transport system, ATPase
component [Amino acid transport and metabolism].
Length = 240
Score = 27.5 bits (62), Expect = 5.4
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 47 RIKLVFQEFELEPHQT 62
++ +VFQ+F L PH T
Sbjct: 78 KVGMVFQQFNLFPHLT 93
>gnl|CDD|233405 TIGR01418, PEP_synth, phosphoenolpyruvate synthase. Also called
pyruvate,water dikinase and PEP synthase. The member
from Methanococcus jannaschii contains a large intein.
This enzyme generates phosphoenolpyruvate (PEP) from
pyruvate, hydrolyzing ATP to AMP and releasing inorganic
phosphate in the process. The enzyme shows extensive
homology to other enzymes that use PEP as substrate or
product. This enzyme may provide PEP for
gluconeogenesis, for PTS-type carbohydrate transport
systems, or for other processes [Energy metabolism,
Glycolysis/gluconeogenesis].
Length = 782
Score = 27.8 bits (62), Expect = 6.6
Identities = 7/27 (25%), Positives = 13/27 (48%), Gaps = 3/27 (11%)
Query: 140 ARYG---HDNYGKSMDCDWTIEAEPGK 163
A+ +YG+ MD +W + G+
Sbjct: 296 AKLAVLIEKHYGRPMDIEWAKDGFDGE 322
>gnl|CDD|213196 cd03229, ABC_Class3, ATP-binding cassette domain of the binding
protein-dependent transport systems. This class is
comprised of all BPD (Binding Protein Dependent)
systems that are largely represented in archaea and
eubacteria and are primarily involved in scavenging
solutes from the environment. ABC transporters are a
large family of proteins involved in the transport of a
wide variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and
GTP-binding and hydrolyzing proteins.
Length = 178
Score = 27.2 bits (61), Expect = 7.4
Identities = 10/24 (41%), Positives = 16/24 (66%), Gaps = 1/24 (4%)
Query: 47 RIKLVFQEFELEPHQTCAYDHVVM 70
RI +VFQ+F L PH T +++ +
Sbjct: 77 RIGMVFQDFALFPHLT-VLENIAL 99
>gnl|CDD|225438 COG2884, FtsE, Predicted ATPase involved in cell division [Cell
division and chromosome partitioning].
Length = 223
Score = 27.2 bits (61), Expect = 7.6
Identities = 10/22 (45%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 47 RIKLVFQEFELEPHQTCAYDHV 68
+I +VFQ+F L P +T Y++V
Sbjct: 80 QIGVVFQDFRLLPDRT-VYENV 100
>gnl|CDD|165396 PHA03124, PHA03124, dUTPase; Provisional.
Length = 418
Score = 27.2 bits (60), Expect = 8.3
Identities = 10/36 (27%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 51 VFQEFELEPHQTCAYDHVVMYDGDSPDSLTLGRFCG 86
+F+ E +P DH+V+ +G +P+++ RF
Sbjct: 203 LFECLEEQPLDAACNDHIVILNGAAPENIN--RFAA 236
>gnl|CDD|213268 cd03301, ABC_MalK_N, The N-terminal ATPase domain of the maltose
transporter, MalK. ATP binding cassette (ABC) proteins
function from bacteria to human, mediating the
translocation of substances into and out of cells or
organelles. ABC transporters contain two
transmembrane-spanning domains (TMDs) or subunits and
two nucleotide binding domains (NBDs) or subunits that
couple transport to the hydrolysis of ATP. In the
maltose transport system, the periplasmic maltose
binding protein (MBP) stimulates the ATPase activity of
the membrane-associated transporter, which consists of
two transmembrane subunits, MalF and MalG, and two
copies of the ATP binding subunit, MalK, and becomes
tightly bound to the transporter in the catalytic
transition state, ensuring that maltose is passed to
the transporter as ATP is hydrolyzed.
Length = 213
Score = 26.8 bits (60), Expect = 8.9
Identities = 12/24 (50%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 44 PGHR-IKLVFQEFELEPHQTCAYD 66
P R I +VFQ + L PH T YD
Sbjct: 69 PKDRDIAMVFQNYALYPHMT-VYD 91
>gnl|CDD|213226 cd03259, ABC_Carb_Solutes_like, ATP-binding cassette domain of
the carbohydrate and solute transporters-like. This
family is comprised of proteins involved in the
transport of apparently unrelated solutes and proteins
specific for di- and oligosaccharides and polyols. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds,
like sugars, ions, peptides and more complex organic
molecules. The nucleotide-binding domain shows the
highest similarity between all members of the family.
ABC transporters are a subset of nucleotide hydrolases
that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 213
Score = 26.7 bits (60), Expect = 9.8
Identities = 11/24 (45%), Positives = 14/24 (58%), Gaps = 2/24 (8%)
Query: 41 TTTPGHR--IKLVFQEFELEPHQT 62
T P R I +VFQ++ L PH T
Sbjct: 65 TGVPPERRNIGMVFQDYALFPHLT 88
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 0.139 0.444
Gapped
Lambda K H
0.267 0.0690 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,410,825
Number of extensions: 1112832
Number of successful extensions: 774
Number of sequences better than 10.0: 1
Number of HSP's gapped: 771
Number of HSP's successfully gapped: 21
Length of query: 248
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 154
Effective length of database: 6,768,326
Effective search space: 1042322204
Effective search space used: 1042322204
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: 58 (26.2 bits)