RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11925
(458 letters)
>gnl|CDD|214514 smart00094, TR_FER, Transferrin.
Length = 332
Score = 234 bits (600), Expect = 9e-74
Identities = 109/338 (32%), Positives = 157/338 (46%), Gaps = 41/338 (12%)
Query: 99 IRWCVSSPEGMSKCLAFKDAAFSRDIRPPFECNREKSSKVCLKLIADGAADVITLDATEA 158
+RWC S SKC + + RD P EC S++ C+K I G AD +TLD +
Sbjct: 1 VRWCAVSNAEKSKCDQWSVNSRGRD-VPALECVSASSTEECIKAIQKGEADAVTLDGGDV 59
Query: 159 VLGRKNLNLRPILKEKYGNEKD----LLAVAVVNKNSKVKSLEELKGLKSCHTAYMRTTG 214
K NL P+ E YG+E++ AVAVV K S + + +L+G KSCHT RT G
Sbjct: 60 YTAGKPYNLVPVFAENYGSEEEPETGYYAVAVVKKGSAIFTWNQLRGKKSCHTGVGRTAG 119
Query: 215 WVAPVYNLLEKGLIKKDSCPYYKGVAEFFTGGSCVPGIDEEEKDAPASLEKICPKATRVT 274
W P+ L K +I+ +CP+ K V++FF SC PG D + D ++L +C +
Sbjct: 120 WNIPMGLLYNKLVIRPPNCPFEKAVSKFF-SASCAPGAD--KPDPNSNLCALCAGDNKCA 176
Query: 275 ---------YT-PLQCLKSGDGDVAFIKQVKVNKAIEEGLFKTDEIEYLCSKGGRAPVSK 324
Y+ +CL G GDVAF+K V + G+
Sbjct: 177 CSSHEPYYGYSGAFRCLAEGAGDVAFVKHSTVFENT----------------DGKNGADW 220
Query: 325 AGDY---EIEYLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNVEIDTIRHAILSAAD 381
A + + E LC G R PV++ +C+L VP H VV K I + +
Sbjct: 221 AKNLKRDDYELLCLDGTRKPVTEYKNCHLARVPSHAVVARKDKKEDVIWELLNQ---QQK 277
Query: 382 LFSKKPEIFKLFGSFMGKPDVLFLNPATGVEVLPDQAT 419
KP +F+LFGS GK D+LF + A + +P +
Sbjct: 278 FGKDKPSLFQLFGSPTGK-DLLFKDSAKCLAKIPPKTD 314
>gnl|CDD|215903 pfam00405, Transferrin, Transferrin.
Length = 328
Score = 183 bits (465), Expect = 6e-54
Identities = 109/343 (31%), Positives = 151/343 (44%), Gaps = 50/343 (14%)
Query: 99 IRWCVSSPEGMSKCLAFKDAAFSRDIRPPFECNREKSSKVCLKLIADGAADVITLDAT-- 156
+RWC S KC + +D + P C ++ S C++ IA+ AD ITLD
Sbjct: 1 VRWCAVSNPEAKKCGSLRDN-MKKVGGPSLSCVKKSSYLECIQAIAENEADAITLDGGLV 59
Query: 157 -EAVLGRKNLNLRPILKEKYGNEKD----LLAVAVVNKNSKVKSLEELKGLKSCHTAYMR 211
EA G L+P+ E YG++++ AVAVV K S L +L+G KSCHT R
Sbjct: 60 YEA--GLAPYKLKPVAAEVYGSKEEPQTHYYAVAVVKKGSNF-QLNQLQGKKSCHTGLGR 116
Query: 212 TTGWVAPVYNLLEKGLIK--KDSCPYYKGVAEFFTGGSCVPGIDEEEKDAPASL-----E 264
+ GW P+ L + + P K V++FF SCVPG DE L E
Sbjct: 117 SAGWNIPIG--LLRPQLPWAIPREPLEKAVSKFF-SASCVPGADEGAFPKLCQLCAGDGE 173
Query: 265 KICPKATRVTYT----PLQCLKSGDGDVAFIKQVKVNKAIEEGLFKTDEIEYLCSKGGRA 320
C + Y +CLK G GDVAF+K V + + + K D +Y
Sbjct: 174 NKCACSNNEPYFGYSGAFKCLKDGAGDVAFVKHSTVFENLPD---KADRDQY-------- 222
Query: 321 PVSKAGDYEIEYLCSKGGRAPVSKAADCNLGVVPPHMVVTSNSKSNVEIDTIRHAILSAA 380
E LC R PV + DC+L VP H VV + + + D I + A
Sbjct: 223 ----------ELLCPDNTRKPVDEYKDCHLARVPSHAVVARS--VDGKEDLIWELLNQAQ 270
Query: 381 DLFSK-KPEIFKLFGSFMGKPDVLFLNPATGVEVLPDQATDVE 422
+ F K K F+LF S G+ D+LF + A G +P D
Sbjct: 271 EKFGKDKSSDFQLFSSPHGQKDLLFKDSAIGFVRVP-SKMDSF 312
>gnl|CDD|221878 pfam12974, Phosphonate-bd, ABC transporter, phosphonate,
periplasmic substrate-binding protein. This is a family
of periplasmic proteins which are part of the transport
system for alkylphosphonate uptake.
Length = 242
Score = 55.3 bits (134), Expect = 1e-08
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 1/89 (1%)
Query: 140 LKLIADGAADVITLDATEAVLGRKNLNLRPILKEKYGNEKDLL-AVAVVNKNSKVKSLEE 198
++ + G D+ L VL P+ + +V +V K+S +KSLE+
Sbjct: 43 IEALRSGRVDIAFLGPLAYVLAVDRAGAEPLATPVRKDGSAGYRSVIIVRKDSPIKSLED 102
Query: 199 LKGLKSCHTAYMRTTGWVAPVYNLLEKGL 227
LKG T+G++ P L E G+
Sbjct: 103 LKGKTFAFGDPNSTSGYLVPRALLKEAGI 131
>gnl|CDD|225762 COG3221, PhnD, ABC-type phosphate/phosphonate transport system,
periplasmic component [Inorganic ion transport and
metabolism].
Length = 299
Score = 44.7 bits (106), Expect = 5e-05
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 2/90 (2%)
Query: 146 GAADVITLDATEAVL-GRKNLNLRPIL-KEKYGNEKDLLAVAVVNKNSKVKSLEELKGLK 203
G D+ L + V + L P+ + +V +V +S +KSLE+LKG +
Sbjct: 87 GQVDIAWLGPSAYVEAVDRALAGEPLAQTVQKDGSPGYYSVIIVRADSPIKSLEDLKGKR 146
Query: 204 SCHTAYMRTTGWVAPVYNLLEKGLIKKDSC 233
T+G++ P+Y L ++G I D
Sbjct: 147 FAFGDPDSTSGYLFPLYYLAKEGGIDPDKF 176
>gnl|CDD|233271 TIGR01098, 3A0109s03R, phosphate/phosphite/phosphonate ABC
transporters, periplasmic binding protein. Phosphonates
are a varied class of phosphorus-containing organic
compound in which a direct C-P bond is found, rather
than a C-O-P linkage of the phosphorus through an oxygen
atom. They may be toxic but also may be used as sources
of phosphorus and energy by various bacteria.
Phosphonate utilization systems typically are encoded in
14 or more genes, including a three gene ABC
transporter. This family includes the periplasmic
binding protein component of ABC transporters for
phosphonates as well as other, related binding
components for closely related substances such as
phosphate and phosphite. A number of members of this
family are found in genomic contexts with components of
selenium metabolic processes suggestive of a role in
selenate or other selenium-compound transport. A subset
of this model in which nearly all members exhibit
genomic context with elements of phosphonate metabolism,
particularly the C-P lyase system (GenProp0232) has been
built (TIGR03431) as an equivalog. Nevertheless, there
are members of this subfamily (TIGR01098) which show up
sporadically on a phylogenetic tree that also show
phosphonate context and are most likely competent to
transport phosphonates [Transport and binding proteins,
Anions].
Length = 254
Score = 37.3 bits (87), Expect = 0.009
Identities = 16/49 (32%), Positives = 28/49 (57%)
Query: 183 AVAVVNKNSKVKSLEELKGLKSCHTAYMRTTGWVAPVYNLLEKGLIKKD 231
+V +V +S +KSL++LKG T+G++ P Y L ++G + D
Sbjct: 123 SVIIVKADSPIKSLKDLKGKTFAFGDPASTSGYLVPRYQLKKEGGLDAD 171
>gnl|CDD|132472 TIGR03431, PhnD, phosphonate ABC transporter, periplasmic
phosphonate binding protein. This model is a subset of
the broader subfamily of phosphate/phosphonate binding
protein ABC transporter components, TIGR01098. In this
model all members of the seed have support from genomic
context for association with pathways for the metabolims
of phosphonates, particularly the C-P lyase system,
GenProp0232. This model includes the characterized phnD
gene from E. coli. Note that this model does not
identify all phnD-subfamily genes with evident
phosphonate context, but all sequences above the trusted
context may be inferred to bind phosphonate compounds
even in the absence of such context. Furthermore, there
is ample evidence to suggest that many other members of
the TIGR01098 subfamily have a different primary
function.
Length = 288
Score = 34.6 bits (80), Expect = 0.085
Identities = 24/63 (38%), Positives = 34/63 (53%), Gaps = 4/63 (6%)
Query: 184 VAVVNKNSKVKSLEELKGLKSCHTAYMRTTGWVAPVYNLLEKGLIKKDSCPYYKGVAEFF 243
V +V K+S +KSLE+LKG T+G++ P Y L +K IK Y+K V F
Sbjct: 118 VLIVKKDSPIKSLEDLKGKTFGFVDPNSTSGFLVPSYYLFKKNGIKPKE--YFKKVT--F 173
Query: 244 TGG 246
+G
Sbjct: 174 SGS 176
>gnl|CDD|152995 pfam12561, TagA, ToxR activated gene A lipoprotein. This domain
family is found in bacteria, and is approximately 140
amino acids in length. The family is found in
association with pfam10462. There is a conserved GAG
sequence motif. This family is a bacterial lipoprotein.
Length = 135
Score = 28.9 bits (65), Expect = 2.5
Identities = 28/92 (30%), Positives = 37/92 (40%), Gaps = 17/92 (18%)
Query: 264 EKICPKATRVTYTPLQCLKSGDGDVA-FIKQVKVNKAIEEGLFKTDEIEYLCSKGGRAPV 322
+C R +YT S +GD A F+ V + I G DEI + +
Sbjct: 41 LPVC----RFSYT------STNGDSATFVGYVDTSNYICTG---GDEITWSINGQRNRME 87
Query: 323 SKAGDYEIEYLCSKGGRAPVSKAADCNLGVVP 354
SK DYE L SK GR V+ +G V
Sbjct: 88 SKLNDYE---LLSKYGRGAVTYTPTPEIGEVN 116
>gnl|CDD|180363 PRK06038, PRK06038, N-ethylammeline chlorohydrolase; Provisional.
Length = 430
Score = 29.7 bits (67), Expect = 3.0
Identities = 34/125 (27%), Positives = 51/125 (40%), Gaps = 27/125 (21%)
Query: 127 PFECNREKSSKVCLKLIADGAADVITLDATEAVLGRKNLNLRPILKEKYG---------- 176
P+ C+ E SKV DG I + TEA L + +KE+YG
Sbjct: 184 PYTCSEEFLSKVKKLANKDGVGIHIHVLETEAELNQ--------MKEQYGMCSVNYLDDI 235
Query: 177 ---NEKDLLAVAVVNKNSKVKSLEELKGLKSCH--TAYMRTTGWVAPVYNLLEKGL---I 228
L A V + ++ L E +G+ H + M+ +APV LLE+G+ +
Sbjct: 236 GFLGPDVLAAHCVWLSDGDIEILRE-RGVNVSHNPVSNMKLASGIAPVPKLLERGVNVSL 294
Query: 229 KKDSC 233
D C
Sbjct: 295 GTDGC 299
>gnl|CDD|180344 PRK05994, PRK05994, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 427
Score = 29.7 bits (67), Expect = 3.3
Identities = 22/60 (36%), Positives = 28/60 (46%), Gaps = 13/60 (21%)
Query: 399 KPDVLFLNPATGVEVLPDQATDVETNYSNNMLSKVHARYLFGLKSF-NFYTLLGTAIPTN 457
+PD P TG P T T++ N HA LFGL++F N YT + PTN
Sbjct: 18 QPD-----PTTGARATPIYQT---TSFVFN--DADHAASLFGLQAFGNIYTRITN--PTN 65
>gnl|CDD|236852 PRK11119, proX, glycine betaine transporter periplasmic subunit;
Provisional.
Length = 331
Score = 29.5 bits (67), Expect = 3.6
Identities = 29/86 (33%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 374 HAILSAADLFSKKPEIFKLFGSFM-GKPDVLFLNPATGVEV----------LPDQATDVE 422
+ I + A L K P+I KLF + GK D+ NP G E L D T +
Sbjct: 127 YNITNIAQL--KDPKIAKLFDTNGDGKADLTGCNPGWGCEAVINHQLKAYGLEDTVTHNQ 184
Query: 423 TNYSNNMLSKVHARYLFGLKSFNFYT 448
NY+ M + ARY G K +YT
Sbjct: 185 GNYAALMADTI-ARYKEG-KPVLYYT 208
>gnl|CDD|173007 PRK14541, PRK14541, nucleoside diphosphate kinase; Provisional.
Length = 140
Score = 28.4 bits (63), Expect = 4.3
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 234 PYYKGVAEFFTGGSCVPGIDEEE 256
P+Y + EF + G CVP I E+E
Sbjct: 56 PFYGELVEFMSSGPCVPMILEKE 78
>gnl|CDD|200414 TIGR04163, rSAM_cobopep, peptide-modifying radical SAM enzyme CbpB.
Members of this family are radical SAM enzymes that
modify a short peptide encoded by an upstream gene. A
role in metal chelation is suggested.
Length = 428
Score = 29.0 bits (65), Expect = 5.6
Identities = 22/71 (30%), Positives = 30/71 (42%), Gaps = 1/71 (1%)
Query: 80 LQKANYEDVIGRVVKPIKPIRWCVSSPEGMSKCLAFKDAAFSRDIRPPFECN-REKSSKV 138
L+ A + V GR V+ I+P R C S C A R C ++ +
Sbjct: 355 LESAAFRAVTGRKVEQIEPCRTCAIRHFCGSPCPAEAHEMNGGMNRIGAYCEFYKEQVRY 414
Query: 139 CLKLIADGAAD 149
+LIADG AD
Sbjct: 415 AFRLIADGKAD 425
>gnl|CDD|237075 PRK12360, PRK12360, 4-hydroxy-3-methylbut-2-enyl diphosphate
reductase; Provisional.
Length = 281
Score = 28.9 bits (65), Expect = 5.8
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 189 KNSKVKSLEELKGLKSCHTAYMRTTGWVAPVYNLL-EKGLIKKD-SCPYYKGV 239
K K E+ LK +R+ G VY L +KGL D +CP+ K +
Sbjct: 53 KGVKTIEESEIDSLKEGDVVIIRSHGVSKKVYKDLKDKGLEIIDATCPFVKKI 105
>gnl|CDD|241453 cd13299, PH2_PH_fungal, Fungal proteins Pleckstrin homology (PH)
domain, repeat 2. The functions of these fungal
proteins are unknown, but they all contain 2 PH domains.
This cd represents the second PH repeat. 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 = 102
Score = 27.2 bits (61), Expect = 6.3
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 92 VVKPIKPIRWCVSSPEGMSKCL-AFK 116
++ P K IR+C E + K L A K
Sbjct: 74 IITPEKRIRFCADDEESLIKWLGALK 99
>gnl|CDD|148541 pfam06979, DUF1301, Protein of unknown function (DUF1301). This
family contains a number of eukaryotic proteins of
unknown function that are approximately 160 residues
long.
Length = 133
Score = 27.4 bits (61), Expect = 8.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 387 PEIFKLFGSFMGKPDVLFLNPA 408
PE+ +F +F K L +NPA
Sbjct: 96 PEVPGMFTTFYAKTKSLLVNPA 117
>gnl|CDD|225233 COG2358, Imp, TRAP-type uncharacterized transport system,
periplasmic component [General function prediction
only].
Length = 321
Score = 28.5 bits (64), Expect = 8.2
Identities = 27/95 (28%), Positives = 42/95 (44%), Gaps = 21/95 (22%)
Query: 123 DIRPPFECNREKS--SKVCLKLIADGAAD--VITLD-ATEAVLGRKNLNLRPILKEKYGN 177
EC+ + S LKL+A G AD ++ D A EA G E G
Sbjct: 52 KDEKGIECSVVPTGGSVENLKLLASGEADLALVQSDVAYEAYNGTG-------SFEGKGK 104
Query: 178 EKDLLAVA---------VVNKNSKVKSLEELKGLK 203
+++L AVA V K++ +K++ +LKG +
Sbjct: 105 DENLRAVAALYPEPFHVVTRKDAGIKTIADLKGKR 139
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
0.316 0.134 0.398
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,890,298
Number of extensions: 2187057
Number of successful extensions: 1683
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1663
Number of HSP's successfully gapped: 19
Length of query: 458
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 358
Effective length of database: 6,502,202
Effective search space: 2327788316
Effective search space used: 2327788316
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: 41 (21.6 bits)
S2: 61 (27.3 bits)