RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17897
(391 letters)
>gnl|CDD|197673 smart00352, POU, Found in Pit-Oct-Unc transcription factors.
Length = 75
Score = 154 bits (392), Expect = 4e-47
Identities = 56/78 (71%), Positives = 61/78 (78%), Gaps = 3/78 (3%)
Query: 229 DTDTDPRELEAFAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFESLTLSH 288
D DTDPRELEAFA++FKQRRIKLG TQADVG AL L P A SQ+TICRFE+L LS
Sbjct: 1 DDDTDPRELEAFAKQFKQRRIKLGFTQADVGLALGALYGP---AFSQTTICRFEALQLSF 57
Query: 289 NNMIALKPILQAWLEEAE 306
NM LKP+LQ WLEEAE
Sbjct: 58 KNMCKLKPLLQKWLEEAE 75
>gnl|CDD|189427 pfam00157, Pou, Pou domain - N-terminal to homeobox domain.
Length = 75
Score = 126 bits (319), Expect = 3e-36
Identities = 50/78 (64%), Positives = 55/78 (70%), Gaps = 3/78 (3%)
Query: 229 DTDTDPRELEAFAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFESLTLSH 288
D TD ELE FA+ FKQRRIKLG TQADVG AL L P SQ+TICRFE+L LS
Sbjct: 1 DDTTDLDELEQFAKEFKQRRIKLGYTQADVGLALGALYGP---VFSQTTICRFEALQLSF 57
Query: 289 NNMIALKPILQAWLEEAE 306
NM LKP+L+ WLEEAE
Sbjct: 58 KNMCKLKPLLEKWLEEAE 75
>gnl|CDD|200956 pfam00046, Homeobox, Homeobox domain.
Length = 57
Score = 80.6 bits (200), Expect = 2e-19
Identities = 23/57 (40%), Positives = 32/57 (56%)
Query: 328 KRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKR 384
+RKRT+ + LE F PS E+ +A+KL L + V+VWF N+R K KR
Sbjct: 1 RRKRTTFTPEQLEELEKEFEKNRYPSAEEREELAKKLGLTERQVKVWFQNRRAKWKR 57
>gnl|CDD|197696 smart00389, HOX, Homeodomain. DNA-binding factors that are
involved in the transcriptional regulation of key
developmental processes.
Length = 57
Score = 72.3 bits (178), Expect = 2e-16
Identities = 25/57 (43%), Positives = 33/57 (57%)
Query: 327 KKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQK 383
K+RKRTS + LE F P PS E+ +A+KL L + V+VWF N+R K K
Sbjct: 1 KRRKRTSFTPEQLEELEKEFQKNPYPSREEREELAKKLGLSERQVKVWFQNRRAKWK 57
>gnl|CDD|238039 cd00086, homeodomain, Homeodomain; DNA binding domains involved in
the transcriptional regulation of key eukaryotic
developmental processes; may bind to DNA as monomers or
as homo- and/or heterodimers, in a sequence-specific
manner.
Length = 59
Score = 71.9 bits (177), Expect = 4e-16
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 328 KRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRMK 386
+RKRT + LE F P PS E+ +A++L L + V++WF N+R K KR +
Sbjct: 1 RRKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRSE 59
>gnl|CDD|227863 COG5576, COG5576, Homeodomain-containing transcription factor
[Transcription].
Length = 156
Score = 43.6 bits (103), Expect = 3e-05
Identities = 17/62 (27%), Positives = 29/62 (46%)
Query: 323 PAGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQ 382
+ K KR + LE F + P PS ++ L++ V++WF N+R K+
Sbjct: 47 GSSPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKE 106
Query: 383 KR 384
K+
Sbjct: 107 KK 108
>gnl|CDD|238045 cd00093, HTH_XRE, Helix-turn-helix XRE-family like proteins.
Prokaryotic DNA binding proteins belonging to the
xenobiotic response element family of transcriptional
regulators.
Length = 58
Score = 36.0 bits (84), Expect = 0.002
Identities = 16/43 (37%), Positives = 24/43 (55%), Gaps = 9/43 (20%)
Query: 241 AERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFES 283
ER K+ R + G+TQ ++ + L GV S+STI R E+
Sbjct: 1 GERLKELRKEKGLTQEELAEKL------GV---SRSTISRIEN 34
>gnl|CDD|222221 pfam13560, HTH_31, Helix-turn-helix domain. This domain is a
helix-turn-helix domain that probably binds to DNA.
Length = 63
Score = 34.8 bits (81), Expect = 0.005
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 9/45 (20%)
Query: 239 AFAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFES 283
R ++ R + G+TQA++ + L GV S+ST+ R E+
Sbjct: 1 ELGARLRRLRERAGLTQAELAERL------GV---SRSTLSRIET 36
>gnl|CDD|224314 COG1396, HipB, Predicted transcriptional regulators
[Transcription].
Length = 120
Score = 35.0 bits (79), Expect = 0.014
Identities = 22/123 (17%), Positives = 43/123 (34%), Gaps = 9/123 (7%)
Query: 240 FAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFESLTLSHNNMIALKPILQ 299
ER K+ R K G++Q ++ + L GV S+STI R E ++ L +
Sbjct: 2 IGERLKELRKKKGLSQEELAERL------GV---SRSTISRIERGRSESPSLELLARLAA 52
Query: 300 AWLEEAEAQAKNKRRDPDAPSVLPAGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAA 359
A + + + A + + A + +E + + +
Sbjct: 53 ALGVSLDELLEEEEELEIEELNELAKLLLLEEEELLAILEELIEEREELGLIVLKDALEE 112
Query: 360 IAE 362
+ E
Sbjct: 113 LLE 115
>gnl|CDD|197775 smart00530, HTH_XRE, Helix-turn-helix XRE-family like proteins.
Length = 56
Score = 32.9 bits (76), Expect = 0.023
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 9/41 (21%)
Query: 243 RFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFES 283
R K+ R + G+TQ ++ + L GV S+ST+ R E+
Sbjct: 1 RLKELREEKGLTQEELAEKL------GV---SRSTLSRIEN 32
>gnl|CDD|215173 PLN02304, PLN02304, probable pectinesterase.
Length = 379
Score = 36.4 bits (84), Expect = 0.023
Identities = 23/78 (29%), Positives = 26/78 (33%), Gaps = 14/78 (17%)
Query: 164 MTTLTPMSDPTPNPHQLHSSSMYGPSMNSMMTGHHHHHHHSGALPASHHHGATHHPV--- 220
TTL S P L S+ S + H HHHS HHH H
Sbjct: 1 STTLFKTSPAAPLLGHLIELSLISFSSKIATSYPHSIHHHS-----HHHHHHKHPDDGKK 55
Query: 221 ------MPPGLQHPDTDT 232
PP PDT+T
Sbjct: 56 VSICDDFPPDFPPPDTNT 73
Score = 29.8 bits (67), Expect = 2.5
Identities = 16/55 (29%), Positives = 18/55 (32%), Gaps = 5/55 (9%)
Query: 85 MTTLTPMSDPTPNPHQLHSSSMYGPSMNSMMTGHHHHHHHSGALPASHHHVATPS 139
TTL S P L S+ S + H HHHS HHH
Sbjct: 1 STTLFKTSPAAPLLGHLIELSLISFSSKIATSYPHSIHHHS-----HHHHHHKHP 50
>gnl|CDD|182039 PRK09706, PRK09706, transcriptional repressor DicA; Reviewed.
Length = 135
Score = 33.3 bits (76), Expect = 0.072
Identities = 30/140 (21%), Positives = 55/140 (39%), Gaps = 34/140 (24%)
Query: 238 EAFAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFESLTLSHN-----NMI 292
+R + RR +L ++Q + KA+ +S +I ++E N+
Sbjct: 4 LTLGQRIRYRRKQLKLSQRSLAKAV---------KVSHVSISQWER---DETEPTGKNLF 51
Query: 293 ALKPILQ---AWLEEAEAQAKNKRRDPDAPSVLPAGEKKRKRTSIAAPEKRSLEAYFAVQ 349
AL LQ WL + ++K+ P P P ++ +K LE + A+
Sbjct: 52 ALAKALQCSPTWLLFGD---EDKQPTPPVPLNQP--------VELSEDQKELLELFDAL- 99
Query: 350 PRPSGEKIAAIAEKLDLKKN 369
P E+ A ++E +N
Sbjct: 100 --PESEQDAQLSEMRARVEN 117
>gnl|CDD|205103 pfam12844, HTH_19, Helix-turn-helix domain. Members of this family
contains a DNA-binding helix-turn-helix domain.
Length = 64
Score = 31.4 bits (72), Expect = 0.089
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 9/43 (20%)
Query: 241 AERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFES 283
ER K+ R G++Q D+ + L G+ S+S + + E+
Sbjct: 1 GERLKELREAKGLSQEDLAEKL------GI---SKSYLSKIEN 34
>gnl|CDD|224393 COG1476, COG1476, Predicted transcriptional regulators
[Transcription].
Length = 68
Score = 30.6 bits (70), Expect = 0.16
Identities = 23/77 (29%), Positives = 33/77 (42%), Gaps = 25/77 (32%)
Query: 243 RFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFE------SLTLSHNNMIALKP 296
+ K+ R +LG+TQ ++ K + GV S+ TI E SL L+ IA
Sbjct: 5 KLKELRAELGLTQEELAKLV------GV---SRQTIIAIEKGKYNPSLELAL--KIA--R 51
Query: 297 ILQA------WLEEAEA 307
+ LEE EA
Sbjct: 52 VFGKTIEDIFQLEEDEA 68
>gnl|CDD|201759 pfam01381, HTH_3, Helix-turn-helix. This large family of DNA
binding helix-turn helix proteins includes Cro and CI.
Within the Neisseria gonorrhoeae phage associated
protein NGO0477, the full protein fold incorporates a
helix-turn-helix motif, but the function of this member
is unlikely to be that of a DNA-binding regulator, the
function of most other members, so is not necessarily
characteristic of the whole family.
Length = 55
Score = 29.0 bits (66), Expect = 0.45
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 9/39 (23%)
Query: 245 KQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFES 283
K+ R +LG++Q ++ + L GV S+STI + E+
Sbjct: 2 KELREELGLSQEELAEKL------GV---SRSTISKIEN 31
>gnl|CDD|236641 PRK10019, PRK10019, nickel/cobalt efflux protein RcnA; Provisional.
Length = 279
Score = 32.1 bits (73), Expect = 0.46
Identities = 10/27 (37%), Positives = 10/27 (37%)
Query: 193 MMTGHHHHHHHSGALPASHHHGATHHP 219
M H H H H H HG HH
Sbjct: 119 NMHHHDHDHDHDHDHEHHHDHGHHHHH 145
Score = 30.9 bits (70), Expect = 0.98
Identities = 11/30 (36%), Positives = 11/30 (36%)
Query: 197 HHHHHHHSGALPASHHHGATHHPVMPPGLQ 226
HHH H H HHH HH G
Sbjct: 121 HHHDHDHDHDHDHEHHHDHGHHHHHEHGAT 150
Score = 28.6 bits (64), Expect = 4.8
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 196 GHHHHHHHSGALPASHHHGA 215
H HHHHH A + A
Sbjct: 138 DHGHHHHHEHGATAEEYQDA 157
Score = 28.6 bits (64), Expect = 5.6
Identities = 7/15 (46%), Positives = 7/15 (46%)
Query: 117 GHHHHHHHSGALPAS 131
H HHHHH A
Sbjct: 138 DHGHHHHHEHGATAE 152
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 31.4 bits (72), Expect = 0.55
Identities = 15/76 (19%), Positives = 34/76 (44%), Gaps = 1/76 (1%)
Query: 299 QAWLEEAEAQAKNKRRDPDAPSVLPAGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIA 358
+ LEEA+A+ + +R + A AGEK++ P+ ++ + + +
Sbjct: 100 RKQLEEAKAKVQAQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEPQHT 159
Query: 359 AIAEKLDLKKN-VVRV 373
+++ +L V+V
Sbjct: 160 PVSDISELTVGQAVKV 175
>gnl|CDD|226147 COG3620, COG3620, Predicted transcriptional regulator with
C-terminal CBS domains [Transcription].
Length = 187
Score = 31.2 bits (71), Expect = 0.57
Identities = 28/72 (38%), Positives = 36/72 (50%), Gaps = 19/72 (26%)
Query: 242 ERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFES----LTLSHNNMIALKPI 297
E ++RR +LG+TQ D LA + GV SQ I R E+ LS +K I
Sbjct: 8 EDLRKRRKELGITQKD----LA--RRAGV---SQPYIARLEAGKVDPRLS-----TVKRI 53
Query: 298 LQAWLEEAEAQA 309
L+A LEEAE
Sbjct: 54 LEA-LEEAEKTR 64
>gnl|CDD|221952 pfam13166, AAA_13, AAA domain. This family of domains contain a
P-loop motif that is characteristic of the AAA
superfamily. Many of the proteins in this family are
conjugative transfer proteins. This family includes the
PrrC protein that is thought to be the active component
of the anticodon nuclease.
Length = 713
Score = 31.9 bits (73), Expect = 0.59
Identities = 18/82 (21%), Positives = 33/82 (40%), Gaps = 3/82 (3%)
Query: 236 ELEA-FAERFKQRRIKLGVTQADVGKALANLKLPGVGALSQSTICRFESLTLSHNNMIAL 294
ELEA F E +++ +L + L + ++ + E L + AL
Sbjct: 271 ELEAHFDEEYQELIEQLEELIDKYESHIEKA-LEELESILDTEKENSEFK-LDVEELKAL 328
Query: 295 KPILQAWLEEAEAQAKNKRRDP 316
L+ LE+ + + K +DP
Sbjct: 329 LEALEEILEKNLQKLEEKLKDP 350
>gnl|CDD|237361 PRK13355, PRK13355, bifunctional HTH-domain containing
protein/aminotransferase; Provisional.
Length = 517
Score = 31.6 bits (72), Expect = 0.69
Identities = 28/113 (24%), Positives = 43/113 (38%), Gaps = 14/113 (12%)
Query: 238 EAFAERFKQRRIKLGVTQADVGKALA--NLKLPGVGALSQ----STICRFESLTLSHNNM 291
FAER KQ G+ Q D+ A +KL G +SQ T R + L +
Sbjct: 2 TTFAERLKQAMKARGLKQEDLVHAAEARGVKL-GKSHISQYVSGKTGPRRDVL----PFL 56
Query: 292 IALKPILQAWLEEAEAQAKNKRRDPDAPSVLPAGEKKRKRTSIAAPEKRSLEA 344
A+ + + WL E+ A + DA +V+ + A S +
Sbjct: 57 AAILGVSEDWLLGGESPADQ---ESDASAVVESAPNSHLADPSAPTTPISQTS 106
>gnl|CDD|185511 PTZ00199, PTZ00199, high mobility group protein; Provisional.
Length = 94
Score = 29.4 bits (66), Expect = 0.86
Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 26/73 (35%)
Query: 303 EEAEAQAKNKRRDPDAPSVLPAGEKKRKRTSIAAPEKRSLEAY--FAVQPRPSGEKIAAI 360
+ + K K++DP+AP KR+L AY FA + R I
Sbjct: 7 KVLVRKNKRKKKDPNAP-------------------KRALSAYMFFAKEKR-----AEII 42
Query: 361 AEKLDLKKNVVRV 373
AE +L K+V V
Sbjct: 43 AENPELAKDVAAV 55
>gnl|CDD|173783 cd03363, TOPRIM_TopoIA_TopoI, TOPRIM_TopoIA_TopoI: The
topoisomerase-primase (TORPIM) domain found in members
of the type IA family of DNA topoisomerases (Topo IA)
similar to Escherichia coli DNA topoisomerase I. Type
IA DNA topoisomerases remove (relax) negative supercoils
in the DNA by: cleaving one strand of the DNA duplex,
covalently linking to the 5' phosphoryl end of the DNA
break and, allowing the other strand of the duplex to
pass through the gap. The TOPRIM domain has two
conserved motifs, one of which centers at a conserved
glutamate and the other one at two conserved aspartates
(DxD). For topoisomerases the conserved glutamate is
believed to act as a general base in strand joining and,
as a general acid in strand cleavage. The DXD motif may
co-ordinate Mg2+, a cofactor required for full catalytic
function.
Length = 123
Score = 29.8 bits (68), Expect = 0.92
Identities = 20/38 (52%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 339 KRSLEAYFAVQPRPSGEKIAA-IAEKLDLKKNVVRVWF 375
K++ E Y A P GE IA +AE L LKKNV RV F
Sbjct: 71 KKADEIYLATDPDREGEAIAWHLAEVLKLKKNVKRVVF 108
>gnl|CDD|223062 PHA03373, PHA03373, tegument protein; Provisional.
Length = 247
Score = 30.2 bits (68), Expect = 1.5
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 228 PDTDTDPRELEAFAE-RFKQRRIKLGVTQADV 258
P D + ELEAF E FK G+TQAD+
Sbjct: 28 PSEDVELAELEAFLEENFKD----FGITQADI 55
>gnl|CDD|224546 COG1631, RPL42A, Ribosomal protein L44E [Translation, ribosomal
structure and biogenesis].
Length = 94
Score = 28.5 bits (64), Expect = 1.6
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 4/63 (6%)
Query: 327 KKRKRTSIAAPE---KRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQK 383
KK K + +A + +R Y QPRP + A +K+DL+ +QR
Sbjct: 26 KKGKASELAWGQRRYRRKQSGY-GGQPRPVPKGKAKPTKKVDLRLRCTECGKAHQRTPGF 84
Query: 384 RMK 386
R K
Sbjct: 85 RAK 87
>gnl|CDD|143443 cd07125, ALDH_PutA-P5CDH, Delta(1)-pyrroline-5-carboxylate
dehydrogenase, PutA. The proline catabolic enzymes of
the aldehyde dehydrogenase (ALDH) protein superfamily,
proline dehydrogenase and
Delta(1)-pyrroline-5-carboxylate dehydrogenase (P5CDH,
(EC=1.5.1.12 )), catalyze the two-step oxidation of
proline to glutamate; P5CDH catalyzes the oxidation of
glutamate semialdehyde, utilizing NAD+ as the electron
acceptor. In some bacteria, the two enzymes are fused
into the bifunctional flavoenzyme, proline utilization A
(PutA) These enzymes play important roles in cellular
redox control, superoxide generation, and apoptosis. In
certain prokaryotes such as Escherichia coli, PutA is
also a transcriptional repressor of the proline
utilization genes.
Length = 518
Score = 30.2 bits (69), Expect = 1.8
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 237 LEAFAERFKQRRIKL-GVTQADVGKALAN 264
LE A+ + R +L + A+ GK LA+
Sbjct: 97 LEKAADLLEANRGELIALAAAEAGKTLAD 125
>gnl|CDD|220365 pfam09726, Macoilin, Transmembrane protein. This entry is a highly
conserved protein present in eukaryotes.
Length = 680
Score = 30.3 bits (68), Expect = 2.4
Identities = 26/157 (16%), Positives = 39/157 (24%), Gaps = 7/157 (4%)
Query: 64 PHQMSHHGMDGLEMLDSISSSMTTLTPMSDPTPNPHQLHSSSMYGPSMNSMMTGHHHHHH 123
+ S + T + H L SS HHH
Sbjct: 205 ENHTLSVTDKEKSEASSKGLTSTKELVPVQNSGGNHSLSKSSNSQTPELEYSEKGKDHHH 264
Query: 124 HSGALPASH----HHV--ATPSLLLFPQMSHHGMDGLEMLDSISSSMTTLTPMSDPTPNP 177
S HH A L + +H S + S T + S
Sbjct: 265 SHNHQHHSIGINNHHSKHADSKLQTIEVIENHSNKSRPSSSSTNGSKETTSNSSSAAAGS 324
Query: 178 HQL-HSSSMYGPSMNSMMTGHHHHHHHSGALPASHHH 213
S S + N + H +G++P+S
Sbjct: 325 IGSKSSKSAKHSNRNKSNSSPKSHSSANGSVPSSSVS 361
>gnl|CDD|133403 cd04776, HTH_GnyR, Helix-Turn-Helix DNA binding domain of the
regulatory protein GnyR. Putative helix-turn-helix
(HTH) regulatory protein, GnyR, and other related
proteins. GnyR belongs to the gnyRDBHAL cluster, which
is involved in acyclic isoprenoid degradation in
Pseudomonas aeruginosa. These proteins share the
N-terminal DNA binding domain with other transcription
regulators of the MerR superfamily that promote
transcription by reconfiguring the spacer between the
-35 and -10 promoter elements. A typical MerR regulator
is comprised of distinct domains that harbor the
regulatory (effector-binding) site and the active
(DNA-binding) site. Their conserved N-terminal domains
contain predicted winged HTH motifs that mediate DNA
binding, while the dissimilar C-terminal domains bind
specific coactivator molecules.
Length = 118
Score = 28.3 bits (64), Expect = 2.8
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 225 LQHPDTDTDPRELEAFAERFKQRRIKLGVTQADVGKALANLK 266
L P + ++LE E+ ++RR +L + D+ ALA L
Sbjct: 67 LYDPP-GGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELD 107
>gnl|CDD|177518 PHA03073, PHA03073, late transcription factor VLTF-2; Provisional.
Length = 150
Score = 28.8 bits (65), Expect = 3.1
Identities = 13/58 (22%), Positives = 18/58 (31%), Gaps = 17/58 (29%)
Query: 331 RTSIAAPEKRSLEAYFAVQPRPSGEKIAAI---------AEKLDLKKNVVRVWFCNQR 379
I+AP+ AV E I+ I +L + WFC Q
Sbjct: 9 DIVISAPK--------AVAKPAKDESISCILPKYYNSVADVRLKTNSDNDYCWFCKQD 58
>gnl|CDD|237110 PRK12472, PRK12472, hypothetical protein; Provisional.
Length = 508
Score = 29.1 bits (65), Expect = 4.3
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 7/38 (18%)
Query: 323 PAGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAI 360
AG+ KR AAP + A PR +GE I AI
Sbjct: 27 LAGDAAAKRARPAAPTE-------ATAPREAGEPIMAI 57
>gnl|CDD|216257 pfam01034, Syndecan, Syndecan domain. Syndecans are transmembrane
heparin sulfate proteoglycans which are implicated in
the binding of extracellular matrix components and
growth factors.
Length = 207
Score = 28.6 bits (64), Expect = 4.8
Identities = 12/82 (14%), Positives = 16/82 (19%), Gaps = 6/82 (7%)
Query: 157 LDSISSSMTTLTPMSDPTPNPHQLHSSSMYG---PSMNSMMTGHHHHHHHSGALPASHHH 213
S S S T + D P + N T S
Sbjct: 52 EYSGSGSGATPSDDEDSEPVTTSATPPKLTTTSSSPSNDTTTASTSTKTSP---TVSTTV 108
Query: 214 GATHHPVMPPGLQHPDTDTDPR 235
T P + T +
Sbjct: 109 TTTTSPSETDTEEATTTVSTET 130
>gnl|CDD|219797 pfam08326, ACC_central, Acetyl-CoA carboxylase, central region.
The region featured in this family is found in various
eukaryotic acetyl-CoA carboxylases, N-terminal to the
catalytic domain (pfam01039). This enzyme (EC:6.4.1.2)
is involved in the synthesis of long-chain fatty acids,
as it catalyzes the rate-limiting step in this process.
Length = 707
Score = 29.2 bits (66), Expect = 4.9
Identities = 14/30 (46%), Positives = 18/30 (60%), Gaps = 4/30 (13%)
Query: 233 DPRELEA----FAERFKQRRIKLGVTQADV 258
DP +E F ERF +R +L VTQA+V
Sbjct: 623 DPSSVEEALAGFLERFGRRLWRLRVTQAEV 652
>gnl|CDD|218163 pfam04592, SelP_N, Selenoprotein P, N terminal region. SelP is the
only known eukaryotic selenoprotein that contains
multiple selenocysteine (Sec) residues, and accounts for
more than 50% of the selenium content of rat and human
plasma. It is thought to be glycosylated. SelP may have
antioxidant properties. It can attach to epithelial
cells, and may protect vascular endothelial cells
against peroxynitrite toxicity. The high selenium
content of SelP suggests that it may be involved in
selenium intercellular transport or storage. The
promoter structure of bovine SelP suggest that it may be
involved in countering heavy metal intoxication, and may
also have a developmental function. The N-terminal
region of SelP can exist independently of the C terminal
region. Zebrafish selenoprotein Pb lacks the C terminal
Sec-rich region, and a protein encoded by the rat SelP
gene and lacking this region has also been reported.
N-terminal region contains a conserved SecxxCys motif,
which is similar to the CysxxCys found in thioredoxins.
It is speculated that the N terminal region may adopt a
thioredoxin fold and catalyze redox reactions. The
N-terminal region also contains a His-rich region, which
is thought to mediate heparin binding. Binding to
heparan proteoglycans could account for the membrane
binding properties of SelP. The function of the
bacterial members of this family is uncharcterised.
Length = 238
Score = 28.7 bits (64), Expect = 5.0
Identities = 13/56 (23%), Positives = 18/56 (32%)
Query: 172 DPTPNPHQLHSSSMYGPSMNSMMTGHHHHHHHSGALPASHHHGATHHPVMPPGLQH 227
+ P H S + ++ H HHH S + S P GL H
Sbjct: 178 EAEPRQDHPHHHSHHEHQGHAHHHPHGHHHPGSNSHSESQQPDPDKPTEPPSGLHH 233
>gnl|CDD|227709 COG5422, ROM1, RhoGEF, Guanine nucleotide exchange factor for
Rho/Rac/Cdc42-like GTPases [Signal transduction
mechanisms].
Length = 1175
Score = 28.7 bits (64), Expect = 6.8
Identities = 24/91 (26%), Positives = 32/91 (35%), Gaps = 7/91 (7%)
Query: 128 LPASHHHVATPSLLLF--PQMSHHGMDGLEMLDSISSSMTTLTPMSDPTPNPHQLHSSSM 185
LP+S H T ++F SH G I S + M P+P+ Q SSS
Sbjct: 149 LPSSSTH-GTHPPIVFTDNNGSHAGAPNARSRKEIPSLGSQ--SMQLPSPHFRQKFSSSD 205
Query: 186 YGPSMNSMMTGHHHHHHHSGALPASHHHGAT 216
S + HS S H +T
Sbjct: 206 T--SNGFSYPSIRKNSRHSSNSMPSFPHSST 234
>gnl|CDD|236558 PRK09545, znuA, high-affinity zinc transporter periplasmic
component; Reviewed.
Length = 311
Score = 28.0 bits (63), Expect = 8.8
Identities = 8/26 (30%), Positives = 9/26 (34%)
Query: 193 MMTGHHHHHHHSGALPASHHHGATHH 218
+M G H HH A H H
Sbjct: 113 LMKGAHDDHHDDDHDHAGHEKSDEDH 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
0.316 0.128 0.389
Gapped
Lambda K H
0.267 0.0647 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 20,021,592
Number of extensions: 1896975
Number of successful extensions: 3155
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2838
Number of HSP's successfully gapped: 139
Length of query: 391
Length of database: 10,937,602
Length adjustment: 99
Effective length of query: 292
Effective length of database: 6,546,556
Effective search space: 1911594352
Effective search space used: 1911594352
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 (21.7 bits)
S2: 60 (27.1 bits)