RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4643
(207 letters)
>gnl|CDD|238143 cd00232, HemeO, Heme oxygenase catalyzes the rate limiting step in
the degradation of heme to bilirubin, it is essential
for recycling of iron from heme. Heme is used as a
substrate and cofactor for its own degradation to
biliverdin, iron, and carbon monoxide. This family
includes bacterial HO, as well as the mammalian isoforms
HO-1, and HO-2. Heme oxygenases play key roles in heme
homeostasis, oxidative stress response, photosynthetic
pigment formation in cyanobacteria, cellular signaling
in mammals, and iron acquisition from host heme by
bacterial pathogens.
Length = 203
Score = 111 bits (279), Expect = 1e-30
Identities = 52/190 (27%), Positives = 84/190 (44%), Gaps = 14/190 (7%)
Query: 1 MVDFGSGAMSDTSIWIEGLLVFYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADL 60
M D G +S L Y V++ LE+ +E K N YL + +++R A E DL
Sbjct: 23 MKDLLKGFLSREGY-ARFLANLYLVYRALEALLEASKDNPYLAPLYLPELERAAALEKDL 81
Query: 61 EHYLGPDWKADYKPRPDWKADYKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSG 120
+ G DW+ P P Y L ++ + N LL+ + Y Y LSG
Sbjct: 82 AYLGGSDWRVREPPLP-----------AAAYAARLREIAEENPALLLGHAYVRYGADLSG 130
Query: 121 GQIINKKRQLSLMKSNYQDQVLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLLAES 180
GQ++ K Q +L+ +F + G KR+ + LD + + R++++AE+
Sbjct: 131 GQVLAKIAQRALLLEGKGLAFYAFHGIADRGLFKREFREALD--ALPLDEEERQRVVAEA 188
Query: 181 RKVFLLNNSI 190
R F LN +
Sbjct: 189 RAAFRLNGQV 198
>gnl|CDD|201611 pfam01126, Heme_oxygenase, Heme oxygenase.
Length = 204
Score = 100 bits (252), Expect = 9e-27
Identities = 40/170 (23%), Positives = 72/170 (42%), Gaps = 19/170 (11%)
Query: 22 FYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADLEHYLGPDWKADYKPRPDWKAD 81
Y V+ LE +E ++ + ++ R A E DL + G DW+AD + P
Sbjct: 44 LYFVYSALEEELERNRDSPVAAPIYFPELNRKAALERDLAYLYGADWRADIQDSPA---- 99
Query: 82 YKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSGGQIINKKRQLSLMKSNYQDQ- 140
Y+ + ++ + LL+A+ Y YLG LSGGQ++ K Q +L
Sbjct: 100 ------TQEYVPRIREIGNESPELLVAHAYTRYLGDLSGGQLLKKIAQRAL---GLPPGE 150
Query: 141 ---VLSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLLAESRKVFLLN 187
F+ + K++ + L+ + + + R + + E+ F LN
Sbjct: 151 GTAFYEFEGISDRKVFKQEYREALN--ALELDDEARARAVEEANDAFALN 198
>gnl|CDD|214383 CHL00168, pbsA, heme oxygenase; Provisional.
Length = 238
Score = 79.4 bits (196), Expect = 3e-18
Identities = 52/192 (27%), Positives = 91/192 (47%), Gaps = 21/192 (10%)
Query: 23 YEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADLEHYLGPDWKADYKPRPDWKADY 82
Y V+ +E +E++K + ++ ++ R E+ E DL +Y G DWK+ +P P K
Sbjct: 47 YFVYSAIEEEIEKNKEHPLIKPIYFQELNRKESLEKDLNYYYGDDWKSIIEPSPATKI-- 104
Query: 83 KPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSGGQIINKKRQLSL-MKSNYQDQV 141
Y++ + + LLIA+ Y YLG LSGGQI+ K Q ++ + +
Sbjct: 105 --------YVDRIHKISAKKPELLIAHAYTRYLGDLSGGQILKKIAQRAMNLSDSGGLAF 156
Query: 142 LSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLLAESRKVFLLN--------NSIIKC 193
FD + + K+ K+ LD + S + ++AE+ F LN +S IK
Sbjct: 157 YDFDNIEDDQEFKQIYKAALD--NLPLSDDQIQNIIAEANIAFNLNMKMFQELNSSFIKI 214
Query: 194 VLELLEVLLKTF 205
+ L++ + +F
Sbjct: 215 ITMLIKNTILSF 226
>gnl|CDD|227685 COG5398, COG5398, Heme oxygenase [Inorganic ion transport and
metabolism].
Length = 238
Score = 73.7 bits (181), Expect = 4e-16
Identities = 51/186 (27%), Positives = 82/186 (44%), Gaps = 12/186 (6%)
Query: 22 FYEVFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADLEHYLGPDWKADYKPRPDWKAD 81
Y V+ LE+A + HK N L ++ R E DL +Y G +W+ + +P P A
Sbjct: 44 LYFVYSALEAATQIHKDNPILSSIYFPELNRKATLEKDLLYYYGNNWRENIQPSPATIA- 102
Query: 82 YKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSGGQIINKKRQLSLMKSNYQDQV 141
Y++ + + T LLIA+ Y YLG LSGGQI+ K Q +L S
Sbjct: 103 ---------YVDRVRYIAATAPELLIAHNYTRYLGDLSGGQILKKIAQSALELSEGGTAF 153
Query: 142 LSFDPSVNVGQLKRQIKSILDDESTQFSRQTREQLLAESRKVFLLNNSIIKCVLELLEVL 201
F+ + K + + LD S + T+ +++ E+ F N + + + L
Sbjct: 154 YEFEDLGDEKAFKDEYRQNLD--SLELDEATKLRIVDEANDAFDFNMQMFQELEGNLIKA 211
Query: 202 LKTFDF 207
+ F F
Sbjct: 212 IGKFSF 217
>gnl|CDD|179132 PRK00808, PRK00808, hypothetical protein; Provisional.
Length = 150
Score = 27.3 bits (61), Expect = 3.6
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 88 VVNYLNHLEDLKQTNDTLLIAYV 110
+V+Y+NHL D + + D L +A V
Sbjct: 24 IVDYINHLHDAQDSPDRLAVAEV 46
>gnl|CDD|224769 COG1856, COG1856, Uncharacterized homolog of biotin synthetase
[Function unknown].
Length = 275
Score = 27.9 bits (62), Expect = 4.0
Identities = 19/64 (29%), Positives = 31/64 (48%), Gaps = 6/64 (9%)
Query: 82 YKPRESVVNYLNHLEDLKQTNDTLLIAYVYHMYLGVLSGGQIINKKRQLSLMKSNYQDQV 141
YK +SV +YL L LK+ I V H+ +G L G+I + + + ++ NY+
Sbjct: 129 YKLPKSVEDYLRSLLLLKENG----IRVVPHITIG-LDFGKIHGEFKAIDIL-VNYEPDA 182
Query: 142 LSFD 145
L
Sbjct: 183 LVLV 186
>gnl|CDD|220756 pfam10441, Urb2, Urb2/Npa2 family. This family includes the Urb2
protein from yeast that are involved in ribosome
biogenesis.
Length = 218
Score = 27.6 bits (62), Expect = 4.2
Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 9/63 (14%)
Query: 150 VGQLKRQIKSILDDESTQFSRQTREQLLA---------ESRKVFLLNNSIIKCVLELLEV 200
+ + R +K +L +S FS+ + E L + SI + +LL
Sbjct: 6 ILKCLRVLKELLSRKSWLFSQYSVELTLPLLSTLASSLRVSLDPEDSGSIFISLCQLLSS 65
Query: 201 LLK 203
+L
Sbjct: 66 ILL 68
>gnl|CDD|224278 COG1359, COG1359, Uncharacterized conserved protein [Function
unknown].
Length = 100
Score = 26.2 bits (58), Expect = 5.5
Identities = 10/54 (18%), Positives = 19/54 (35%), Gaps = 7/54 (12%)
Query: 16 IEGLLVFYEVFKFLESAMEEHKSNQYLQQFN------ISDMKRTEAFEADLEHY 63
G V EV++ E+A++ H + + Q F ++ E
Sbjct: 48 NPGRFVLIEVWED-EAALDAHLQSPHFQAFVAALPPLLAGPPEIRVLEPVEGPG 100
>gnl|CDD|129880 TIGR00798, mtc, tricarboxylate carrier. The MTC family consists of
a limited number of homologues, all from eukaryotes. A
single member of the family has been functionally
characterized, the tricarboxylate carrier from rat liver
mitochondria. The rat liver mitochondrial tricarboxylate
carrier has been reported to transport citrate,
cis-aconitate, threo-D-isocitrate, D- and L-tartrate,
malate, succinate and phosphoenolpyruvate. It presumably
functions by a proton symport mechanism [Transport and
binding proteins, Carbohydrates, organic alcohols, and
acids].
Length = 318
Score = 27.3 bits (61), Expect = 5.7
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 87 SVVNYLNHLEDLKQTNDTLLIAYVY 111
+ VNY N D T LL++Y
Sbjct: 122 AAVNYTNRSGDSPLTLSQLLVSYCA 146
>gnl|CDD|191867 pfam07837, FTCD_N, Formiminotransferase domain, N-terminal
subdomain. The formiminotransferase (FT) domain of
formiminotransferase- cyclodeaminase (FTCD) forms a
homodimer, and each protomer comprises two subdomains.
The N-terminal subdomain is made up of a six-stranded
mixed beta-pleated sheet and five alpha helices, which
are arranged on the external surface of the beta sheet.
This, in turn, faces the beta-sheet of the C-terminal
subdomain to form a double beta-sheet layer. The two
subdomains are separated by a short linker sequence,
which is not thought to be any more flexible than the
remainder of the molecule. The substrate is predicted to
form a number of contacts with residues found in both
the N-terminal and C-terminal subdomains.
Length = 178
Score = 26.8 bits (60), Expect = 6.7
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 25 VFKFLESAMEEHKSNQYLQQFNISDMKRTEAFEADLEHYLGPDWKADYKPR 75
V+ + E+A + N ++ +++ E +E E P+WK D+ P
Sbjct: 121 VYLYEEAATRPERRN-------LAAIRKGE-YEGLKEKIKDPEWKPDFGPA 163
>gnl|CDD|112624 pfam03820, Mtc, Tricarboxylate carrier.
Length = 307
Score = 26.9 bits (60), Expect = 7.4
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 87 SVVNYLNHLEDLKQTNDTLLIAYVY 111
+ VNY N D ++ LL++Y
Sbjct: 114 AAVNYTNRSGDSPISSRQLLVSYCA 138
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
0.319 0.135 0.389
Gapped
Lambda K H
0.267 0.0778 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,427,636
Number of extensions: 953182
Number of successful extensions: 897
Number of sequences better than 10.0: 1
Number of HSP's gapped: 890
Number of HSP's successfully gapped: 23
Length of query: 207
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 115
Effective length of database: 6,857,034
Effective search space: 788558910
Effective search space used: 788558910
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: 57 (25.6 bits)