RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9230
(361 letters)
>gnl|CDD|202582 pfam03248, Rer1, Rer1 family. RER1 family protein are involved in
involved in the retrieval of some endoplasmic reticulum
membrane proteins from the early golgi compartment. The
C terminus of yeast Rer1p interacts with a coatomer
complex.
Length = 175
Score = 202 bits (516), Expect = 2e-64
Identities = 82/186 (44%), Positives = 109/186 (58%), Gaps = 31/186 (16%)
Query: 12 NVFSKTSKSIKQRYQTLLDLSTPYTFGRWSVAALLLIFFLARIYLLQGWYIICYALGIYD 71
+ ++ + + + YQ LD +TP+T RW LL F+ R+ L QGWY++CYALGIY
Sbjct: 1 SAVTRFTNKLSRTYQRYLDKTTPHTAYRWIFFLFLLFLFILRVILAQGWYVVCYALGIYL 60
Query: 72 LNLFIAFLSPKADLWLDSHTDCTPLSCPVKTKVTGGVIRQHFTIYRHFSFPPDNDDDMQL 131
LNLF+AFL+PK D L+ + D ++ L
Sbjct: 61 LNLFLAFLTPKFDPSLEQEDE-------------------------------DVEEGPSL 89
Query: 132 PTRASEEFRPFIRRLPEFKFWYSVMKSTLFATFFTLFDCFNIPVFWPILVLYFITLFIIT 191
PT +EFRPFIRRLPEFKFWYS ++T+ A F T F F+IPVFWPIL++YFI LF +T
Sbjct: 90 PTSNDDEFRPFIRRLPEFKFWYSATRATVIALFCTFFSFFDIPVFWPILLMYFIILFFLT 149
Query: 192 MKRQIK 197
M+RQIK
Sbjct: 150 MRRQIK 155
Score = 149 bits (378), Expect = 6e-44
Identities = 59/123 (47%), Positives = 71/123 (57%), Gaps = 31/123 (25%)
Query: 228 DDDMQLPTRASEEFRPFIRRLPEFKFWYSVMKSTLFATFFTLFDCFNIPVFWPILVLYFI 287
++ LPT +EFRPFIRRLPEFKFWYS ++T+ A F T F F+IPVFWP
Sbjct: 84 EEGPSLPTSNDDEFRPFIRRLPEFKFWYSATRATVIALFCTFFSFFDIPVFWP------- 136
Query: 288 TLFIITMKRQIKGEKVFYWGYLAVILVLYFITLFIITMKRQIKHMIKYRYVPFSWGKPKY 347
IL++YFI LF +TM+RQIKHMIKY+YVPF GKPKY
Sbjct: 137 ------------------------ILLMYFIILFFLTMRRQIKHMIKYKYVPFDIGKPKY 172
Query: 348 ASH 350
Sbjct: 173 GRK 175
>gnl|CDD|227574 COG5249, RER1, Golgi protein involved in Golgi-to-ER retrieval
[Intracellular trafficking and secretion].
Length = 180
Score = 148 bits (375), Expect = 2e-43
Identities = 76/191 (39%), Positives = 97/191 (50%), Gaps = 35/191 (18%)
Query: 7 SNDSGNVFSKTSKSIKQRYQTLLDLSTPYTFGRWSVAALLLIFFLARIYLLQGWYIICYA 66
S+D+ N+ +K + +K YQ LD P RW + L + F RI+ GWY+ICY
Sbjct: 5 SSDTMNLITKMN-DLKTLYQHYLDRLAPRPDVRWGITGGLFLLFCIRIWSTGGWYLICYC 63
Query: 67 LGIYDLNLFIAFLSPKADLWLDSHTDCTPLSCPVKTKVTGGVIRQHFTIYRHFSFPPDND 126
LGIY LN F+AFL+PK D+ SF D
Sbjct: 64 LGIYLLNAFLAFLTPKFDM----------------------------------SFEQIED 89
Query: 127 DDMQLPTRASEEFRPFIRRLPEFKFWYSVMKSTLFATFFTLFDCFNIPVFWPILVLYFIT 186
DD EFRPFIRRLPEFKFWY ++T A + F F++PVFWPILV+YFI
Sbjct: 90 DDEIEEGEKDNEFRPFIRRLPEFKFWYFSTRATGMALIGSYFGIFDVPVFWPILVVYFIF 149
Query: 187 LFIITMKRQIK 197
L T +RQI+
Sbjct: 150 LVFYTARRQIQ 160
Score = 110 bits (277), Expect = 4e-29
Identities = 55/127 (43%), Positives = 65/127 (51%), Gaps = 31/127 (24%)
Query: 224 QRNNDDDMQLPTRASEEFRPFIRRLPEFKFWYSVMKSTLFATFFTLFDCFNIPVFWPILV 283
++ DDD EFRPFIRRLPEFKFWY ++T A + F F++PVFWPILV
Sbjct: 85 EQIEDDDEIEEGEKDNEFRPFIRRLPEFKFWYFSTRATGMALIGSYFGIFDVPVFWPILV 144
Query: 284 LYFITLFIITMKRQIKGEKVFYWGYLAVILVLYFITLFIITMKRQIKHMIKYRYVPFSWG 343
+YFI L FY T +RQI+HM KYRY PF G
Sbjct: 145 VYFIFLV-------------FY------------------TARRQIQHMKKYRYNPFDIG 173
Query: 344 KPKYASH 350
K KY SH
Sbjct: 174 KKKYKSH 180
>gnl|CDD|185008 PRK15048, PRK15048, methyl-accepting chemotaxis protein II;
Provisional.
Length = 553
Score = 31.9 bits (72), Expect = 0.56
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 8 NDSGNVFSKTSKSIKQRYQTLLDLST-PYTFGRWSVAALLLIFFLARIYLLQGWYIICYA 66
N G F++ + S ++ Y+ ++ + Y F +W +A + L+ L LL WY I
Sbjct: 159 NAMGEAFAQYALSSEKLYRDIVTDNADDYRFAQWQLAVIALVVVLI---LLVAWYGIRRM 215
Query: 67 L 67
L
Sbjct: 216 L 216
>gnl|CDD|234462 TIGR04086, TIGR04086_membr, putative membrane protein, TIGR04086
family. Members of this family of strongly hydrophobic
putative transmembrane protein average about 125 amino
acids in length and occur mostly, but not exclusively,
in the Firmicutes. Members are quite diverse in
sequence. The function is unknown.
Length = 115
Score = 30.2 bits (69), Expect = 0.65
Identities = 18/70 (25%), Positives = 34/70 (48%), Gaps = 11/70 (15%)
Query: 260 STLFATFFTLFDC--FNIPVFWPILVLYFITLFI---ITMKRQIKGEKVFYWGYLAVILV 314
+ A D ++ IL++Y +++FI I K+ G K + WG ++ +
Sbjct: 18 LLILALLLYFTDLSEGSLSWL--ILIIYILSVFIGGFIAGKK--AGSKGWLWG--LLVGL 71
Query: 315 LYFITLFIIT 324
LYF+ L +I+
Sbjct: 72 LYFLILLLIS 81
>gnl|CDD|224207 COG1288, COG1288, Predicted membrane protein [Function unknown].
Length = 481
Score = 31.1 bits (71), Expect = 0.85
Identities = 9/45 (20%), Positives = 20/45 (44%), Gaps = 2/45 (4%)
Query: 21 IKQRYQTLLDLSTPYTFGRWSVAALLLIFFLARIY--LLQGWYII 63
++ ++ P+TF V L + F+ I+ ++ GW+
Sbjct: 257 FRETFKVEDSGERPFTFRDKLVLLLFTLTFVIMIWGVIVLGWWFP 301
>gnl|CDD|205044 pfam12725, DUF3810, Protein of unknown function (DUF3810). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 333 and 377 amino
acids in length. There is a conserved HEXXH sequence
motif that is characteristic of metallopeptidases. This
family may therefore belong to an as yet uncharacterized
family of peptidase enzymes.
Length = 317
Score = 29.8 bits (68), Expect = 2.2
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 5/52 (9%)
Query: 267 FTLFDCFNIPVFWPILVLYFITLFIITMKRQIKGEKVFYWGYLAVILVLYFI 318
F+L D +L++ + I KR K K F LA + VLYF+
Sbjct: 23 FSLGDLLYY-----LLIILLLRYLIKLRKRLKKKWKRFLLRVLAYLSVLYFL 69
>gnl|CDD|234815 PRK00701, PRK00701, manganese transport protein MntH; Reviewed.
Length = 439
Score = 29.4 bits (67), Expect = 3.3
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 5/55 (9%)
Query: 273 FNIPVFWPILVLYFITLFIITMKRQIKGEKVFYW---GYLAVILVLYFITLFIIT 324
F IP+ L+ T I+ ++R +G + G L VI + + LF+
Sbjct: 139 FGIPLLQGALITALDTFLILMLQR--RGFRPLEAIIGGLLLVIAAAFIVELFLAQ 191
>gnl|CDD|224826 COG1914, MntH, Mn2+ and Fe2+ transporters of the NRAMP family
[Inorganic ion transport and metabolism].
Length = 416
Score = 28.8 bits (65), Expect = 4.4
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 2/53 (3%)
Query: 273 FNIPVFWPILVLYFITLFIITMKRQIKGEKVFYWGYLAVILVLYFITLFIITM 325
F IP+ ++ L I+ +K E+V L ++LV+ F+ + +
Sbjct: 122 FGIPLIIGAVITAVDVLIILLLKGYRLLERVV--LILGLVLVILFVYVAFVAP 172
>gnl|CDD|205007 pfam12670, DUF3792, Protein of unknown function (DUF3792). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are approximately 130 amino acids in length.
These proteins are integral membrane proteins.
Length = 117
Score = 27.5 bits (62), Expect = 4.5
Identities = 15/68 (22%), Positives = 32/68 (47%), Gaps = 7/68 (10%)
Query: 260 STLFATFFTLFDCFNIPVFWPILVLYFITLFIITM---KRQIKGEKVFYWGYLAVILVLY 316
+ A D + W I+++ +++F+ K+ G K + WG ++ +LY
Sbjct: 23 LLILALLLYFTDLSESVLSWLIVIITLLSVFLGGFVAGKK--AGSKGWLWG--LLVGLLY 78
Query: 317 FITLFIIT 324
F+ L +I+
Sbjct: 79 FLILLLIS 86
>gnl|CDD|237381 PRK13419, PRK13419, F0F1 ATP synthase subunit A; Provisional.
Length = 342
Score = 28.6 bits (64), Expect = 6.3
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 36 TFGRWSVAALLLIFFLARIYLLQGWYIICYALGIYDLNLFIAFL 79
T G + +L+ I F+ + Y++ + +A+ IY L LF+AFL
Sbjct: 267 TAGHIVILSLIFISFILKSYIVAVAVSVPFAIFIYLLELFVAFL 310
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
0.331 0.144 0.467
Gapped
Lambda K H
0.267 0.0738 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 18,989,174
Number of extensions: 1897453
Number of successful extensions: 3777
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3726
Number of HSP's successfully gapped: 174
Length of query: 361
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 263
Effective length of database: 6,590,910
Effective search space: 1733409330
Effective search space used: 1733409330
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 60 (26.9 bits)