RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8859
(109 letters)
>gnl|CDD|131062 TIGR02007, fdx_isc, ferredoxin, 2Fe-2S type, ISC system. This
family consists of proteobacterial ferredoxins
associated with and essential to the ISC system of
2Fe-2S cluster assembly. This family is closely related
to (but excludes) eukaryotic (mitochondrial)
adrenodoxins, which are ferredoxins involved in electron
transfer to P450 cytochromes [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 110
Score = 152 bits (385), Expect = 2e-49
Identities = 60/108 (55%), Positives = 79/108 (73%)
Query: 2 PQVIVLPHPVLCEDGAIFNENSGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFNE 61
P+++ LPH LC +GA+ G ++ D L N I IEHACEKSCAC TCH I+REGF+
Sbjct: 1 PKIVFLPHEDLCPEGAVVEAKPGETILDVALDNGIEIEHACEKSCACTTCHCIVREGFDS 60
Query: 62 INKANEVEEDMLNKAWGLEENSRLSCQVILGSSDLTIEIPRYTINQVK 109
+ +A+E EEDML+KAWGLE +SRLSCQ ++ DL +EIP+YTIN +
Sbjct: 61 LEEASEQEEDMLDKAWGLEPDSRLSCQAVVADEDLVVEIPKYTINHAR 108
>gnl|CDD|223706 COG0633, Fdx, Ferredoxin [Energy production and conversion].
Length = 102
Score = 80.6 bits (199), Expect = 3e-21
Identities = 43/106 (40%), Positives = 56/106 (52%), Gaps = 6/106 (5%)
Query: 1 MPQVIVLPHPVLCEDGAIFNENSGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFN 60
MP++ + E N G +L +A +N I IE+AC AC TC V + EGF+
Sbjct: 1 MPKIAFVTIDG--EGDVTEAVNEGETLLEAAERNGIPIEYACRGG-ACGTCRVKVLEGFD 57
Query: 61 EINKANEVEEDMLNKAWGLEENSRLSCQ--VILGSSDLTIEIPRYT 104
E++ E EED+L A GLE NSRLSCQ V +E P YT
Sbjct: 58 EVSPPEESEEDLL-DAAGLEGNSRLSCQCRVKGDLDIEVVEEPEYT 102
>gnl|CDD|178203 PLN02593, PLN02593, adrenodoxin-like ferredoxin protein.
Length = 117
Score = 75.9 bits (187), Expect = 2e-19
Identities = 37/87 (42%), Positives = 54/87 (62%), Gaps = 4/87 (4%)
Query: 24 GISLCDALLKNSIFIEHACEKSCACATCHVII--REGFNEINKANEVEEDMLNKAWGLEE 81
G+SL +A +N I +E ACE S AC+TCHVI+ + +N++ + + E DML+ A+GL E
Sbjct: 20 GMSLLEAAHENDIELEGACEGSLACSTCHVIVMDEKVYNKLPEPTDEENDMLDLAFGLTE 79
Query: 82 NSRLSCQVILGSS--DLTIEIPRYTIN 106
SRL CQVI + + +P T N
Sbjct: 80 TSRLGCQVIAKPELDGMRLALPAATRN 106
>gnl|CDD|185668 PTZ00490, PTZ00490, Ferredoxin superfamily; Provisional.
Length = 143
Score = 66.4 bits (162), Expect = 3e-15
Identities = 34/87 (39%), Positives = 48/87 (55%), Gaps = 4/87 (4%)
Query: 24 GISLCDALLKNS-IFIEHACEKSCACATCHVIIREG-FNEINKANEVEEDMLNKAWGLEE 81
G+SL AL + + +E C CATCHV + F ++ +E EED+L KA ++E
Sbjct: 55 GMSLMHALRDVAKLDVEGTCNGCMQCATCHVYLSAASFKKLGGPSEEEEDVLAKALDVKE 114
Query: 82 NSRLSCQVILGS--SDLTIEIPRYTIN 106
SRL+CQV L L +E+P Y N
Sbjct: 115 TSRLACQVDLTPEMDGLEVELPSYVTN 141
>gnl|CDD|238126 cd00207, fer2, 2Fe-2S iron-sulfur cluster binding domain.
Iron-sulfur proteins play an important role in electron
transfer processes and in various enzymatic reactions.
The family includes plant and algal ferredoxins, which
act as electron carriers in photosynthesis and
ferredoxins, which participate in redox chains (from
bacteria to mammals). Fold is ismilar to thioredoxin.
Length = 84
Score = 50.5 bits (121), Expect = 9e-10
Identities = 23/85 (27%), Positives = 33/85 (38%), Gaps = 8/85 (9%)
Query: 15 DGAIFNENSGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFNEINKANEVEEDMLN 74
G G +L DA + I I ++C AC TC V + EG + + L
Sbjct: 8 SGVEVEVPEGETLLDAAREAGIDIPYSCRAG-ACGTCKVEVVEGEVDQ------SDPSLL 60
Query: 75 KAWGLEENSRLSCQVILGSSDLTIE 99
E L+CQ + + L IE
Sbjct: 61 DEEEAEGGYVLACQTRV-TDGLVIE 84
>gnl|CDD|225426 COG2871, NqrF, Na+-transporting NADH:ubiquinone oxidoreductase,
subunit NqrF [Energy production and conversion].
Length = 410
Score = 49.4 bits (118), Expect = 4e-08
Identities = 27/79 (34%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 23 SGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFNEINKANEVEEDMLNKAWGLEEN 82
+G L AL + IFI AC +C C V +++G EI E ++K +E
Sbjct: 53 AGGKLLGALASSGIFISSACGGGGSCGQCKVRVKKGGGEI---LPTELSHISKR-EAKEG 108
Query: 83 SRLSCQVILGSSDLTIEIP 101
RLSCQV + D+ +E+P
Sbjct: 109 WRLSCQVNV-KHDMDLEVP 126
>gnl|CDD|235481 PRK05464, PRK05464, Na(+)-translocating NADH-quinone reductase
subunit F; Provisional.
Length = 409
Score = 48.3 bits (116), Expect = 7e-08
Identities = 28/79 (35%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 23 SGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFNEINKANEVEEDMLNKAWGLEEN 82
+G L AL N IF+ AC +C C V ++EG +I E ++K +E
Sbjct: 52 AGGKLLGALASNGIFLSSACGGGGSCGQCRVKVKEGGGDI---LPTELSHISKR-EAKEG 107
Query: 83 SRLSCQVILGSSDLTIEIP 101
RLSCQV + D+ IE+P
Sbjct: 108 WRLSCQVKV-KQDMKIEVP 125
>gnl|CDD|130996 TIGR01941, nqrF, NADH:ubiquinone oxidoreductase,
Na(+)-translocating, F subunit. This model represents
the NqrF subunit of the six-protein, Na(+)-pumping
NADH-quinone reductase of a number of marine and
pathogenic Gram-negative bacteria. This oxidoreductase
complex functions primarily as a sodium ion pump
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 405
Score = 47.5 bits (113), Expect = 2e-07
Identities = 30/79 (37%), Positives = 38/79 (48%), Gaps = 5/79 (6%)
Query: 23 SGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFNEINKANEVEEDMLNKAWGLEEN 82
+G L + L N IFI AC C C V + EG EI E +K +E
Sbjct: 48 AGGKLLNTLASNGIFISSACGGGGTCGQCRVRVVEGGGEI---LPTELSHFSKR-EAKEG 103
Query: 83 SRLSCQVILGSSDLTIEIP 101
RLSCQV + D++IEIP
Sbjct: 104 WRLSCQVKV-KQDMSIEIP 121
>gnl|CDD|226410 COG3894, COG3894, Uncharacterized metal-binding protein [General
function prediction only].
Length = 614
Score = 39.7 bits (93), Expect = 8e-05
Identities = 25/82 (30%), Positives = 42/82 (51%), Gaps = 9/82 (10%)
Query: 21 ENSGISLCDALLKNSIFIEHACEKSCACATCHVIIREGFNEINKANEVEEDMLNKAWGLE 80
E+ G ++ DA + ++I C C C V+++EG ++I + + E+ + E
Sbjct: 14 EDEGTTILDAARRLGVYIRSVCGGKGTCGKCQVVVQEGNHKIVSSTDHEK------YLRE 67
Query: 81 ENSRLSCQV-ILGSSDLTIEIP 101
RL+CQ +LG DL I IP
Sbjct: 68 RGYRLACQAQVLG--DLVIFIP 87
>gnl|CDD|215725 pfam00111, Fer2, 2Fe-2S iron-sulfur cluster binding domain.
Length = 77
Score = 37.1 bits (86), Expect = 1e-04
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 7/63 (11%)
Query: 29 DALLKNSIFIEHACEKSCACATCHVIIREGFNEINKANEVEEDMLNKAWGLEENSRLSCQ 88
DA + I I ++C C TC V + EG + + +E+D L + + L+CQ
Sbjct: 21 DAAEEAGIDIPYSCRGGG-CGTCAVKVLEG-EVQSDQSFLEDDELAAGYVV-----LACQ 73
Query: 89 VIL 91
Sbjct: 74 TYP 76
>gnl|CDD|112048 pfam03216, Rhabdo_ncap_2, Rhabdovirus nucleoprotein.
Length = 357
Score = 26.7 bits (59), Expect = 3.0
Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 4/20 (20%)
Query: 72 MLN----KAWGLEENSRLSC 87
ML K++GL +NSR+SC
Sbjct: 280 MLGEGYFKSYGLNDNSRISC 299
>gnl|CDD|223434 COG0357, GidB, Predicted S-adenosylmethionine-dependent
methyltransferase involved in bacterial cell division
[Cell envelope biogenesis, outer membrane].
Length = 215
Score = 26.1 bits (58), Expect = 3.4
Identities = 6/28 (21%), Positives = 14/28 (50%)
Query: 17 AIFNENSGISLCDALLKNSIFIEHACEK 44
AI + ++L ++L K F+ ++
Sbjct: 86 AIAFPDLKVTLLESLGKKIAFLREVKKE 113
>gnl|CDD|239886 cd04439, DEP_1_P-Rex, DEP (Dishevelled, Egl-10, and Pleckstrin)
domain 1 found in P-Rex-like proteins. The P-Rex family
is the guanine-nucleotide exchange factor (GEF) for the
small GTPase Rac that contains an N-terminal RhoGEF
domain, two DEP and PDZ domains. Rac-GEF activity is
stimulated by phosphatidylinositol
(3,4,5)-trisphosphate (PtdIns(3,4,5)P3), a lipid second
messenger, and by the G beta-gamma subunits of
heterotrimeric G proteins. The DEP domains are not
involved in mediating these stimuli, but may be of
importance for basal and stimulated levels Rac-GEF
activity.
Length = 81
Score = 25.2 bits (55), Expect = 4.5
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 12 LCEDGAIFNENSGISLCDALLKNSIFIEHACEK 44
L E G I G++L ALL+N I I H +K
Sbjct: 38 LLEIGEISKPEEGVNLGQALLENGI-IHHVSDK 69
>gnl|CDD|233684 TIGR02008, fdx_plant, ferredoxin [2Fe-2S]. This model represents
single domain 2Fe-2S (also called plant type)
ferredoxins. In general, these occur as a single domain
proteins or with a chloroplast transit peptide. Species
tend to be photosynthetic, but several forms may occur
in one species and individually may not be associated
with photocynthesis. Halobacterial forms differ
somewhat in architecture; they score between trusted
and noise cutoffs. Sequences scoring below the noise
cutoff tend to be ferredoxin-related domains of larger
proteins.
Length = 97
Score = 25.1 bits (55), Expect = 6.0
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 10/58 (17%)
Query: 45 SC---ACATCHVIIREGFNEINKANEVEEDMLNKAWGLEENSRLSCQVILGSSDLTIE 99
SC AC+TC + EG + + + +++D + + L+C V +SD TIE
Sbjct: 39 SCRAGACSTCAGKVEEGTVDQSDQSFLDDDQMEAGY------VLTC-VAYPTSDCTIE 89
>gnl|CDD|223045 PHA03326, PHA03326, nuclear egress membrane protein; Provisional.
Length = 275
Score = 25.1 bits (55), Expect = 8.8
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 8 PHPVLCEDGAIFNENSGISLCDALLK 33
PH + D A+ +N SLCDA+LK
Sbjct: 23 PHELRVTDYALICKNPNYSLCDAMLK 48
>gnl|CDD|169193 PRK08044, PRK08044, allantoinase; Provisional.
Length = 449
Score = 25.2 bits (55), Expect = 9.8
Identities = 20/90 (22%), Positives = 34/90 (37%), Gaps = 18/90 (20%)
Query: 1 MPQVIVLPHPVL--CEDGAIFNE-------NSGISLCDALLKNSIFIE---------HAC 42
++ L PVL CE+ I +E ++ D + +F E A
Sbjct: 173 AQKLGELGQPVLVHCENALICDELGEEAKREGRVTAHDYVASRPVFTEVEAIRRVLYLAK 232
Query: 43 EKSCACATCHVIIREGFNEINKANEVEEDM 72
C CH+ EG E+ +A + +D+
Sbjct: 233 VAGCRLHVCHISSPEGVEEVTRARQEGQDV 262
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
0.320 0.135 0.411
Gapped
Lambda K H
0.267 0.0640 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,393,641
Number of extensions: 438721
Number of successful extensions: 360
Number of sequences better than 10.0: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 19
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
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 (21.8 bits)
S2: 53 (24.4 bits)