RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11033
(251 letters)
>gnl|CDD|237441 PRK13596, PRK13596, NADH dehydrogenase I subunit F; Provisional.
Length = 433
Score = 390 bits (1003), Expect = e-136
Identities = 148/250 (59%), Positives = 173/250 (69%), Gaps = 51/250 (20%)
Query: 1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
+RHDPHKL+EGCL+A AMGA AAYIYIRGEF E +
Sbjct: 98 LRHDPHKLIEGCLIASFAMGAHAAYIYIRGEFIREREAL--------------------- 136
Query: 61 WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
Q AI EAY+AGLIGKNACGSG+DFD+++H
Sbjct: 137 ------------------------------QAAIDEAYEAGLIGKNACGSGWDFDIYVHH 166
Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
GAGAYICGEETAL+ES+EGK+G+PRLKPPFPA+VG++GCPTTV+NVE++AV P I RRG
Sbjct: 167 GAGAYICGEETALLESLEGKKGQPRLKPPFPANVGLYGCPTTVNNVESIAVVPTILRRGA 226
Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
AWFAS+GRP N+GTKLF ISGHVN PC VEE M IP +ELI++HAG V GGWDNLLA+IP
Sbjct: 227 AWFASIGRPNNTGTKLFCISGHVNKPCNVEEAMGIPFRELIEKHAGGVRGGWDNLLAVIP 286
Query: 241 GGSSTPLIPK 250
GGSS PLIP
Sbjct: 287 GGSSVPLIPA 296
>gnl|CDD|185547 PTZ00304, PTZ00304, NADH dehydrogenase [ubiquinone] flavoprotein 1;
Provisional.
Length = 461
Score = 386 bits (992), Expect = e-134
Identities = 160/250 (64%), Positives = 176/250 (70%), Gaps = 51/250 (20%)
Query: 1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
MRHDPHKLVEG L+AG AM A+AAYIYIRGEFYNEA +Q AI E
Sbjct: 119 MRHDPHKLVEGALLAGFAMRARAAYIYIRGEFYNEARALQQAIDE--------------- 163
Query: 61 WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
AY+ G +GKNACGSGYDFDV++HR
Sbjct: 164 ------------------------------------AYKKGFLGKNACGSGYDFDVYVHR 187
Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
GAGAYICGEETALIESIEGK GKPRLKPPFPA+VG++GCPTTV+NVETVAV+P I RRG
Sbjct: 188 GAGAYICGEETALIESIEGKPGKPRLKPPFPANVGLYGCPTTVTNVETVAVSPTILRRGP 247
Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
WFAS GRP N+GTKLF ISGHVN PCTVEEEMSIPL+ELI+RH G V GGWDNLL +IP
Sbjct: 248 QWFASFGRPNNAGTKLFCISGHVNNPCTVEEEMSIPLRELIERHCGGVRGGWDNLLCVIP 307
Query: 241 GGSSTPLIPK 250
GGSS PLIPK
Sbjct: 308 GGSSVPLIPK 317
>gnl|CDD|178678 PLN03132, PLN03132, NADH dehydrogenase (ubiquinone) flavoprotein 1;
Provisional.
Length = 461
Score = 356 bits (915), Expect = e-122
Identities = 156/250 (62%), Positives = 175/250 (70%), Gaps = 51/250 (20%)
Query: 1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
MRHDPHKL+EGCL+A
Sbjct: 129 MRHDPHKLLEGCLIA--------------------------------------------- 143
Query: 61 WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
G M A+AAYIYIRGE+ NE N++ A EAY AGL+GKNACGSGYDFDV++H
Sbjct: 144 ------GVGMRARAAYIYIRGEYVNERLNLERARHEAYAAGLLGKNACGSGYDFDVYIHY 197
Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
GAGAYICGEETAL+ES+EGKQGKPRLKPPFPA+VG++GCPTTV+NVETVAV+P I RRG
Sbjct: 198 GAGAYICGEETALLESLEGKQGKPRLKPPFPANVGLYGCPTTVTNVETVAVSPTILRRGP 257
Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
WFAS GR N+GTKLF ISGHVN PCTVEEEMSIPLKELI+RH G V GGWDNLLAIIP
Sbjct: 258 EWFASFGRKNNAGTKLFCISGHVNKPCTVEEEMSIPLKELIERHCGGVRGGWDNLLAIIP 317
Query: 241 GGSSTPLIPK 250
GGSS PL+PK
Sbjct: 318 GGSSVPLLPK 327
>gnl|CDD|224806 COG1894, NuoF, NADH:ubiquinone oxidoreductase, NADH-binding (51 kD)
subunit [Energy production and conversion].
Length = 424
Score = 313 bits (804), Expect = e-106
Identities = 114/250 (45%), Positives = 145/250 (58%), Gaps = 52/250 (20%)
Query: 1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
M DPH L+EG ++A A+GA YIYIRGE+ +Q AI E
Sbjct: 103 MEGDPHLLIEGMIIAAYAVGATKGYIYIRGEYPEAIERLQKAIEE--------------- 147
Query: 61 WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
AY AGL+GKN GSG+DFD+++H
Sbjct: 148 ------------------------------------AYAAGLLGKNILGSGFDFDLYVHH 171
Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
GAGAYICGEETAL+ES+EGK+G+PRLKPPFPA G++G PT ++NVET+A P I RRG
Sbjct: 172 GAGAYICGEETALLESLEGKRGQPRLKPPFPATSGLYGKPTVINNVETLANVPAIIRRGA 231
Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
WF S+G+P + GTKLF++SGHV P E M L+ELI+ +AG V GGW L A+ P
Sbjct: 232 DWFRSIGKPNSRGTKLFSLSGHVKNPGLYEVPMGTTLRELIEDYAGGVRGGW-KLKAVQP 290
Query: 241 GGSSTPLIPK 250
GG S P +P+
Sbjct: 291 GGPSGPCLPE 300
>gnl|CDD|131014 TIGR01959, nuoF_fam, NADH-quinone oxidoreductase, F subunit. This
model describes the F chain of complexes that resemble
NADH-quinone oxidoreductases. The electron acceptor is a
quinone, ubiquinone, in mitochondria and most bacteria,
including Escherichia coli, where the recommended gene
symbol is nuoF. This family does not have any members in
chloroplast or cyanobacteria, where the quinone may be
plastoquinone and NADH may be replaced by NADPH, nor in
Methanosarcina, where NADH is replaced by F420H2 [Energy
metabolism, Electron transport].
Length = 411
Score = 306 bits (785), Expect = e-103
Identities = 118/250 (47%), Positives = 155/250 (62%), Gaps = 52/250 (20%)
Query: 1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISETLKIWSIHPPWYITV 60
M DPH+L+EG ++A A+GA YIYIRGEF EA N+
Sbjct: 93 MEFDPHQLIEGMIIAAYAIGAHRGYIYIRGEFIKEAENL--------------------- 131
Query: 61 WTHGVAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHR 120
+ AI+EAY AGL+GKN GSG+DF++F+HR
Sbjct: 132 ------------------------------EAAIAEAYAAGLLGKNILGSGFDFELFVHR 161
Query: 121 GAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGG 180
GAGAYICGEETAL+ES+EGK+G+PRLKPPFPA G++G PT ++NVET+A P I RRG
Sbjct: 162 GAGAYICGEETALLESLEGKRGQPRLKPPFPAVFGLYGKPTVINNVETLASVPAILRRGA 221
Query: 181 AWFASLGRPRNSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIP 240
W+ LG+ ++ GTKLF++SGHVN P E + PL+EL++ +AG + GGW L A+IP
Sbjct: 222 DWYRKLGKEKSPGTKLFSVSGHVNKPGNYELPLGTPLRELLEDYAGGMRGGW-KLKAVIP 280
Query: 241 GGSSTPLIPK 250
GGSSTP++P
Sbjct: 281 GGSSTPVLPA 290
>gnl|CDD|236891 PRK11278, PRK11278, NADH dehydrogenase I subunit F; Provisional.
Length = 448
Score = 177 bits (450), Expect = 6e-53
Identities = 81/183 (44%), Positives = 117/183 (63%), Gaps = 3/183 (1%)
Query: 65 VAGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGA 124
++ A+ A YI++RGE+ A N++ AI+EA +AGL+GKN G+G+DF++F+H GAG
Sbjct: 119 ISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGR 178
Query: 125 YICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPEICRRGGAWFA 184
YICGEETALI S+EG++ PR KPPFPA GV+G PT V+NVET+ P I G W+
Sbjct: 179 YICGEETALINSLEGRRANPRSKPPFPATSGVWGKPTCVNNVETLCNVPAILANGVEWYQ 238
Query: 185 SLGRPR--NSGTKLFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGG 242
++ + + ++GTKL SG V P E +E+++ +AG + G A PGG
Sbjct: 239 NISKGKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGL-KFKAWQPGG 297
Query: 243 SST 245
+ T
Sbjct: 298 AGT 300
>gnl|CDD|216542 pfam01512, Complex1_51K, Respiratory-chain NADH dehydrogenase 51 Kd
subunit.
Length = 150
Score = 93.3 bits (233), Expect = 6e-24
Identities = 40/109 (36%), Positives = 51/109 (46%), Gaps = 21/109 (19%)
Query: 66 AGRAMGAKAAYIYIRGEFYNEASNMQVAISEAYQAGLIGKNACGSGYDFDVFMHRGAGAY 125
A A+GAK I I + ++ AI+EA AG D+ + G Y
Sbjct: 63 AAYALGAKKGVIGIEDNKPEAIAALEKAIAEAPAAG-------------DIEVVLLPGKY 109
Query: 126 ICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVSNVETVAVAPE 174
CGEE ALI S+ G+ PR PADVGV V+NVET+A P
Sbjct: 110 PCGEEKALIYSLTGR-EVPRGGL--PADVGV-----VVNNVETLAAVPR 150
Score = 55.9 bits (136), Expect = 5e-10
Identities = 17/45 (37%), Positives = 26/45 (57%)
Query: 1 MRHDPHKLVEGCLVAGRAMGAKAAYIYIRGEFYNEASNMQVAISE 45
MR PH+++EG L+A A+GAK I I + ++ AI+E
Sbjct: 49 MRERPHEIIEGILIAAYALGAKKGVIGIEDNKPEAIAALEKAIAE 93
>gnl|CDD|220798 pfam10531, SLBB, SLBB domain.
Length = 52
Score = 36.8 bits (86), Expect = 5e-04
Identities = 13/53 (24%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 196 LFNISGHVNTPCTVEEEMSIPLKELIQRHAGDVIGGWDNLLAIIPGGSSTPLI 248
+ ++G V P E + L +LI++ G L +IPGG ++
Sbjct: 1 VVTVTGEVKRPGNYEVPIGTTLSDLIEQAGGLTDDA-RRLKRVIPGGPMMGIL 52
>gnl|CDD|177443 PHA02653, PHA02653, RNA helicase NPH-II; Provisional.
Length = 675
Score = 29.6 bits (67), Expect = 2.0
Identities = 11/40 (27%), Positives = 14/40 (35%)
Query: 114 FDVFMHRGAGAYICGEETALIESIEGKQGKPRLKPPFPAD 153
F V HR AY+ S+E K + P D
Sbjct: 42 FPVIKHRWKNAYVVKNNGVYKLSLEAKNRLNEVSNPSLID 81
>gnl|CDD|179393 PRK02250, PRK02250, hypothetical protein; Provisional.
Length = 166
Score = 28.3 bits (63), Expect = 2.3
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 3/42 (7%)
Query: 76 YIYIRGEFYNEASNMQVAISEAYQAGLIGKN---ACGSGYDF 114
+ YI G F E ++++ + G+N CGSG F
Sbjct: 120 WYYIDGTFPEEEPEQDPRLNQSVSSLKQGRNDPCICGSGKKF 161
>gnl|CDD|99747 cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The major groups in this CD
corresponds to serine palmitoyltransferase (SPT),
5-aminolevulinate synthase (ALAS),
8-amino-7-oxononanoate synthase (AONS), and
2-amino-3-ketobutyrate CoA ligase (KBL). SPT is
responsible for the condensation of L-serine with
palmitoyl-CoA to produce 3-ketodihydrospingosine, the
reaction of the first step in sphingolipid biosynthesis.
ALAS is involved in heme biosynthesis; it catalyzes the
synthesis of 5-aminolevulinic acid from glycine and
succinyl-coenzyme A. AONS catalyses the decarboxylative
condensation of l-alanine and pimeloyl-CoA in the first
committed step of biotin biosynthesis. KBL catalyzes the
second reaction step of the metabolic degradation
pathway for threonine converting 2-amino-3-ketobutyrate,
to glycine and acetyl-CoA. The members of this CD are
widely found in all three forms of life.
Length = 349
Score = 27.9 bits (63), Expect = 5.0
Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 15/57 (26%)
Query: 94 ISEAYQAGLIGKNACGSGYDFDVFMHR-------------GAGAYICGEETALIESI 137
+ EA+ G+ G + G F G YI G + LI+ +
Sbjct: 167 VDEAHSVGVYGPHGRGVEE-FGGLTDDVDIIMGTLGKAFGAVGGYIAGSK-ELIDYL 221
>gnl|CDD|177163 MTH00101, ATP6, ATP synthase F0 subunit 6; Validated.
Length = 226
Score = 27.6 bits (62), Expect = 5.9
Identities = 18/42 (42%), Positives = 22/42 (52%), Gaps = 11/42 (26%)
Query: 213 MSIPLKELIQRHAGDVIGGWDN-----LLAIIPGGSSTPLIP 249
M+IPL AG VI G+ N L +P G+ TPLIP
Sbjct: 104 MAIPL------WAGTVITGFRNKTKASLAHFLPQGTPTPLIP 139
>gnl|CDD|235879 PRK06854, PRK06854, adenylylsulfate reductase subunit alpha;
Validated.
Length = 608
Score = 27.2 bits (61), Expect = 8.8
Identities = 12/25 (48%), Positives = 13/25 (52%), Gaps = 1/25 (4%)
Query: 5 PHKLVEGCLVAGRAMGAKAAYIYIR 29
PHK G GR + AKAA YI
Sbjct: 409 PHKFSSGSFAEGR-IAAKAAVRYIL 432
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 0.137 0.432
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,998,772
Number of extensions: 1217106
Number of successful extensions: 984
Number of sequences better than 10.0: 1
Number of HSP's gapped: 979
Number of HSP's successfully gapped: 24
Length of query: 251
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 156
Effective length of database: 6,723,972
Effective search space: 1048939632
Effective search space used: 1048939632
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: 58 (26.0 bits)