RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy583
(293 letters)
>gnl|CDD|128778 smart00502, BBC, B-Box C-terminal domain. Coiled coil region
C-terminal to (some) B-Box domains.
Length = 127
Score = 73.1 bits (180), Expect = 3e-16
Identities = 33/113 (29%), Positives = 52/113 (46%)
Query: 126 KHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINLRGKQ 185
+ ++ LL+++ K L+ A+K + + E + +I L NA+N R KQ
Sbjct: 2 REALEELLTKLRKKAAELEDALKQLISIIQEVEENAADVEAQIKAAFDELRNALNKRKKQ 61
Query: 186 LAYKLNEICDSKQKTLNEKKVTLEQLSRLTDHCIEFVNNGLNTGSDMALLSSK 238
L L E ++K K L ++ +L Q H I F LN+G LL SK
Sbjct: 62 LLEDLEEQKENKLKVLEQQLESLTQKQEKLSHAINFTEEALNSGDPTELLLSK 114
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 42.7 bits (101), Expect = 2e-04
Identities = 40/219 (18%), Positives = 91/219 (41%), Gaps = 11/219 (5%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLR 61
E+S+L+++L+ RL L+ E + + G E EQ K + L+ L
Sbjct: 688 RELSSLQSELRRIENRLDELSQELSDASRKI----GEIEKEIEQLEQEEEKLKERLEELE 743
Query: 62 EKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKW 121
E + LE ++ + +L+ + +++L++ L + L + R +L K
Sbjct: 744 EDLSSLEQEIENVKSELKELEARIEELEEDLHKLEEALNDLEARLSHSRIPEIQAELSKL 803
Query: 122 ATETKHL------IKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLL 175
E + I+ L+ ++ ++ L+ ++ + +++ + E+ K + +EI E +
Sbjct: 804 EEEVSRIEARLREIEQKLNRLTLEKEYLEKEIQELQEQRIDLKEQIKSIEKEI-ENLNGK 862
Query: 176 TNAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRL 214
+ ++L L ++ E+ QL L
Sbjct: 863 KEELEEELEELEAALRDLESRLGDLKKERDELEAQLREL 901
Score = 35.8 bits (83), Expect = 0.028
Identities = 40/211 (18%), Positives = 81/211 (38%), Gaps = 27/211 (12%)
Query: 7 LKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQD 66
L + E+ Q+L L E+ K E E E LL + L + +
Sbjct: 189 LDLIIDEKRQQLERLRREREKAERYQALL--KEKREYEGYELL-----KEKEALERQKEA 241
Query: 67 LESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETK 126
+E QL++ E++LE + +L+K L + E+L ++ E +
Sbjct: 242 IERQLASLEEELEKLTEEISELEKRLEEIEQLLEEL------------NKKIKDLGEEEQ 289
Query: 127 HLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINLRGKQL 186
+K + E+ + L+ ++ + + ++RL + E+ KLL L +
Sbjct: 290 LRVKEKIGELEAEIASLERSIAEKERELE---DAEERLAKLEAEIDKLLAEIEELEREIE 346
Query: 187 AYK-----LNEICDSKQKTLNEKKVTLEQLS 212
+ L E ++ L + + LE++
Sbjct: 347 EERKRRDKLTEEYAELKEELEDLRAELEEVD 377
Score = 30.0 bits (68), Expect = 2.0
Identities = 48/231 (20%), Positives = 97/231 (41%), Gaps = 21/231 (9%)
Query: 2 AEMSALKAKLKEQNQRLITLNHE-----KAKLE------ARTKANPGAHADEQEQTNLLI 50
+ ++ L+E N+++ L E K K+ A + + E E +
Sbjct: 265 KRLEEIEQLLEELNKKIKDLGEEEQLRVKEKIGELEAEIASLERSIAEKERELEDAEERL 324
Query: 51 SKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKR 110
+K + + L +I++LE ++ + K + +LK+ L ++ ++ E++ +AE R
Sbjct: 325 AKLEAEIDKLLAEIEELEREIEEERKRRDKLTEEYAELKEELEDLRAELEEVDKEFAETR 384
Query: 111 NINSGLQ--LDKWATETKHLIKGL------LSEVSYKRVLLKSAMKVIDDRQNLISEKKK 162
+ + L+K E L + L L +S + L +A+ I+ + N + E+K+
Sbjct: 385 DELKDYREKLEKLKREINELKRELDRLQEELQRLSEELADLNAAIAGIEAKINELEEEKE 444
Query: 163 RLTQEITEMVKLLTNAINLRGK--QLAYKLNEICDSKQKTLNEKKVTLEQL 211
EI + L K Q Y L E D +K L++ + L +
Sbjct: 445 DKALEIKKQEWKLEQLAADLSKYEQELYDLKEEYDRVEKELSKLQRELAEA 495
Score = 29.3 bits (66), Expect = 2.9
Identities = 16/88 (18%), Positives = 35/88 (39%), Gaps = 18/88 (20%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLR 61
+ LK ++K + + LN +K +LE + + + AL+ L
Sbjct: 840 EQRIDLKEQIKSIEKEIENLNGKKEELEEE------------------LEELEAALRDLE 881
Query: 62 EKIQDLESQLSTKEKDLEVNNSNLDDLK 89
++ DL+ + E L +++L+
Sbjct: 882 SRLGDLKKERDELEAQLRELERKIEELE 909
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 38.2 bits (89), Expect = 0.005
Identities = 41/203 (20%), Positives = 81/203 (39%), Gaps = 17/203 (8%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLR 61
E+ L+ +L+E + L +L AKL+ + QE L+ L
Sbjct: 751 EELEELQERLEELEEELESLEEALAKLKEEIEELEEKRQALQE-----------ELEELE 799
Query: 62 EKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAE-KRNINSGLQLDK 120
E++++ E +L E++LE + L++ + + + E+L E + + L+K
Sbjct: 800 EELEEAERRLDALERELESLEQRRERLEQEIEELEEEIEELEEKLDELEEELEE---LEK 856
Query: 121 WATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAIN 180
E K ++ L +E LK + ++ + + E + L + E+ KL
Sbjct: 857 ELEELKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEE 916
Query: 181 LRGKQLAYKLNEICDSKQKTLNE 203
L K +L ++ L E
Sbjct: 917 LEAKLE--RLEVELPELEEELEE 937
Score = 36.6 bits (85), Expect = 0.015
Identities = 31/159 (19%), Positives = 66/159 (41%), Gaps = 2/159 (1%)
Query: 6 ALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQ 65
LK K++ + L +LE A + +E+ + L+ + + + LRE++
Sbjct: 327 ELKEKIEALKEELEERETLLEELEQLLAELEEAKEELEEKLSALLEELEELFEALREELA 386
Query: 66 DLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATET 125
+LE++L+ +LE ++ L++ L + E L E LQ +
Sbjct: 387 ELEAELAEIRNELEELKREIESLEERLERLSERLEDLKEELKELEAELEELQTELEELNE 446
Query: 126 KHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRL 164
+ ++ L ++ R LK + + + Q + +K L
Sbjct: 447 E--LEELEEQLEELRDRLKELERELAELQEELQRLEKEL 483
Score = 34.7 bits (80), Expect = 0.055
Identities = 38/193 (19%), Positives = 75/193 (38%), Gaps = 20/193 (10%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLR 61
E+ L+ K + + L L E + E R A +++ L + ++ L
Sbjct: 779 EEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQE----IEELE 834
Query: 62 EKIQDLESQLSTKEKDLEVNNSNLDDLKK---TLANMMSDSEKLYNVYAEKRNINSGLQL 118
E+I++LE +L E++LE L++LK+ L + E E++ +L
Sbjct: 835 EEIEELEEKLDELEEELEELEKELEELKEELEELEAEKEELEDELKELEEEKE-----EL 889
Query: 119 DKWATETKHLIKGLLSEVSYKRVLLKSAMKVID--------DRQNLISEKKKRLTQEITE 170
++ E + + L E+ R L+ ++ + L E + L E+
Sbjct: 890 EEELRELESELAELKEEIEKLRERLEELEAKLERLEVELPELEEELEEEYEDTLETELER 949
Query: 171 MVKLLTNAINLRG 183
++ L I G
Sbjct: 950 EIERLEEEIEALG 962
Score = 34.3 bits (79), Expect = 0.076
Identities = 43/222 (19%), Positives = 92/222 (41%), Gaps = 24/222 (10%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLR 61
E+ L+ +L+E + + L E +L + + Q L L+
Sbjct: 253 EELEELQEELEEAEKEIEELKSELEELREE------------------LEELQEELLELK 294
Query: 62 EKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQ---- 117
E+I++LE ++S + LE + L++L++ L + E L E+ + L+
Sbjct: 295 EEIEELEGEISLLRERLEELENELEELEERLEELKEKIEALKEELEERETLLEELEQLLA 354
Query: 118 -LDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLT 176
L++ E + + LL E+ L+ + ++ I + + L +EI + + L
Sbjct: 355 ELEEAKEELEEKLSALLEELEELFEALREELAELEAELAEIRNELEELKREIESLEERLE 414
Query: 177 NAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRLTDHC 218
++ R + L +L E+ ++ E + E+L L +
Sbjct: 415 R-LSERLEDLKEELKELEAELEELQTELEELNEELEELEEQL 455
Score = 33.9 bits (78), Expect = 0.11
Identities = 41/216 (18%), Positives = 89/216 (41%), Gaps = 14/216 (6%)
Query: 6 ALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHA---DEQEQTNLLISKKQLALKTLRE 62
A K +LKE + L L + KLE K+ D E+ + + + L+ L+
Sbjct: 664 AQKRELKELEEELAELEAQLEKLEEELKSLKNELRSLEDLLEELRRQLEELERQLEELKR 723
Query: 63 KIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWA 122
++ LE +L + LE L++L++ L + E+L + + S L++
Sbjct: 724 ELAALEEELEQLQSRLEELEEELEELEEELEELQERLEEL------EEELES---LEEAL 774
Query: 123 TETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLT--NAIN 180
+ K I+ L + + L+ + +++ + + ++ L +L +
Sbjct: 775 AKLKEEIEELEEKRQALQEELEELEEELEEAERRLDALERELESLEQRRERLEQEIEELE 834
Query: 181 LRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRLTD 216
++L KL+E+ + ++ E + E+L L
Sbjct: 835 EEIEELEEKLDELEEELEELEKELEELKEELEELEA 870
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 37.0 bits (86), Expect = 0.012
Identities = 49/210 (23%), Positives = 87/210 (41%), Gaps = 12/210 (5%)
Query: 3 EMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLRE 62
E+ L A+L+E ++L L E ++LE + E IS+ + + LRE
Sbjct: 254 ELEELTAELQELEEKLEELRLEVSELEEEIEELQK----ELYALANEISRLEQQKQILRE 309
Query: 63 KIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWA 122
++ +LE QL E LE S LD+L + LA + E+L L+ +
Sbjct: 310 RLANLERQLEELEAQLEELESKLDELAEELAELEEKLEELKEELESLEAELEELEAELEE 369
Query: 123 TETK-HLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINL 181
E++ ++ L + K L+ + +++ + + +RL +L L
Sbjct: 370 LESRLEELEEQLETLRSKVAQLELQIASLNNEIERLEARLERLEDRRE---RLQQEIEEL 426
Query: 182 RGKQLAYKLNEICDSKQKTLNEKKVTLEQL 211
K +L E+ Q L E + LE+L
Sbjct: 427 LKKLEEAELKEL----QAELEELEEELEEL 452
Score = 33.1 bits (76), Expect = 0.18
Identities = 40/172 (23%), Positives = 75/172 (43%), Gaps = 11/172 (6%)
Query: 42 EQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEK 101
+ E+ I++ + AL LR+++++LE +L K+LE + + L+K LA + ++ E+
Sbjct: 685 KIEELEEKIAELEKALAELRKELEELEEELEQLRKELEELSRQISALRKDLARLEAEVEQ 744
Query: 102 LYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKK 161
L A QL K TE + I+ L + L A I++ + I + K
Sbjct: 745 LEERIA---------QLSKELTELEAEIEELEERLEEAEEELAEAEAEIEELEAQIEQLK 795
Query: 162 KRLTQEITEMVKLLTNAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSR 213
+ L + +L L + L E +S ++ + + LE L
Sbjct: 796 EELKALREALDELRAELTLLNEEAA--NLRERLESLERRIAATERRLEDLEE 845
Score = 30.4 bits (69), Expect = 1.3
Identities = 39/221 (17%), Positives = 83/221 (37%), Gaps = 18/221 (8%)
Query: 10 KLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLL---ISKKQLALKTLREKIQD 66
++ + L L E +LE R + + + L + + + L +I++
Sbjct: 727 QISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEELAEAEAEIEE 786
Query: 67 LESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETK 126
LE+Q+ +++L+ LD+L+ L + + A R L+ ATE
Sbjct: 787 LEAQIEQLKEELKALREALDELRAELTLLNEE-------AANLRERLESLERRIAATER- 838
Query: 127 HLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINLRGKQL 186
++ L ++ ++S I++ + LI E + L + + L A+ L +L
Sbjct: 839 -RLEDLEEQIEELSEDIESLAAEIEELEELIEELESEL-EALLNERASLEEALALLRSEL 896
Query: 187 AYKLNEICDSKQKTLNEKKVTLEQLSRLTDHCIEFVNNGLN 227
E + + L K+ L + + + L
Sbjct: 897 -----EELSEELRELESKRSELRRELEELREKLAQLELRLE 932
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 35.9 bits (84), Expect = 0.020
Identities = 36/187 (19%), Positives = 73/187 (39%), Gaps = 25/187 (13%)
Query: 11 LKEQNQRLITLNHEKAKL---EARTKANPGAHADEQEQTNLLISKKQLALKTLREK---I 64
K+ + I E+AK EA+ +A E + + K LRE+ +
Sbjct: 25 RKKIAEAKIKEAEEEAKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNEL 84
Query: 65 QDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATE 124
Q LE +L KE++L+ L+ ++ L + E+ +L+K E
Sbjct: 85 QKLEKRLLQKEENLDRKLELLEKREEELEKKEKELEQKQQ------------ELEKKEEE 132
Query: 125 TKHLIKGLLSEVSYKRVLLK-SAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINLRG 183
+ LI+ L E L + S + + ++ L+ + ++ E ++K +
Sbjct: 133 LEELIEEQLQE------LERISGLTAEEAKEILLEKVEEEARHEAAVLIKEIEEEAKEEA 186
Query: 184 KQLAYKL 190
+ A ++
Sbjct: 187 DKKAKEI 193
>gnl|CDD|222878 PHA02562, 46, endonuclease subunit; Provisional.
Length = 562
Score = 36.1 bits (84), Expect = 0.020
Identities = 39/213 (18%), Positives = 94/213 (44%), Gaps = 28/213 (13%)
Query: 2 AEMSAL-KAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTL 60
+EM L K K++E NQ++ TL+ + ++ + K +++++ I++KQ L
Sbjct: 166 SEMDKLNKDKIRELNQQIQTLDMKIDHIQQQIKTYNKNIEEQRKKNGENIARKQNKYDEL 225
Query: 61 REKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDK 120
E+ + +++++ +L +++D L KL A+ ++ ++++
Sbjct: 226 VEEAKTIKAEIEELTDELLNLVMDIEDPSAALN-------KLNTAAAKIKS-----KIEQ 273
Query: 121 WATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAIN 180
+ K KG + + + I + + I++ K +L E+ ++ L AI+
Sbjct: 274 FQKVIKMYEKG---------GVCPTCTQQISEGPDRITKIKDKLK-ELQHSLEKLDTAID 323
Query: 181 LRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSR 213
+L ++E + + K L E K + +
Sbjct: 324 ----ELEEIMDEF-NEQSKKLLELKNKISTNKQ 351
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 34.7 bits (80), Expect = 0.066
Identities = 39/217 (17%), Positives = 87/217 (40%), Gaps = 6/217 (2%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLR 61
E+ + ++ E + L L E KLE K +E E+ + + + + L
Sbjct: 200 KELEEVLREINEISSELPELREELEKLEKEVK-ELEELKEEIEELEKELESLEGSKRKLE 258
Query: 62 EKIQDLESQLSTKEKDLEVNNSNLDDLK--KTLANMMSDSEKLYNVYAEKRNINSGLQLD 119
EKI++LE ++ +K++E + +LK K A + Y Y ++ +L
Sbjct: 259 EKIRELEERIEELKKEIEELEEKVKELKELKEKAEEYIKLSEFYEEYLDELR-EIEKRLS 317
Query: 120 KWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAI 179
+ E + + + E+ K L+ K + + + + E ++R + E
Sbjct: 318 RLEEEINGIEE-RIKELEEKEERLEELKKKLKELEKRLEELEERH-ELYEEAKAKKEELE 375
Query: 180 NLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRLTD 216
L+ + ++ ++ K+ E++S++T
Sbjct: 376 RLKKRLTGLTPEKLEKELEELEKAKEEIEEEISKITA 412
Score = 29.3 bits (66), Expect = 2.9
Identities = 43/193 (22%), Positives = 80/193 (41%), Gaps = 28/193 (14%)
Query: 3 EMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQT------------NLLI 50
++ LK KL E ++L L E A+L + +E E+ L
Sbjct: 550 KLEELKKKLAELEKKLDELEEELAELLKELEELGFESVEELEERLKELEPFYNEYLELKD 609
Query: 51 SKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMS-----DSEKLYNV 105
++K+L + ++++ LE +L ++L L++L+K L + + E+L
Sbjct: 610 AEKEL--EREEKELKKLEEELDKAFEELAETEKRLEELRKELEELEKKYSEEEYEELREE 667
Query: 106 YAEKRNINSGL-----QLDKWATETKHLIKGL---LSEVSYKRVLLKSAMKVIDDRQNLI 157
Y E +GL +L+K E K ++ L L E + L+ K ++ + L
Sbjct: 668 YLELSRELAGLRAELEELEKRREEIKKTLEKLKEELEEREKAKKELEKLEKALERVEELR 727
Query: 158 SEKKKRLTQEITE 170
EK K+ + E
Sbjct: 728 -EKVKKYKALLKE 739
Score = 28.1 bits (63), Expect = 7.8
Identities = 28/129 (21%), Positives = 56/129 (43%), Gaps = 17/129 (13%)
Query: 50 ISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDS---------- 99
+ + +LK EK+++L+ +L+ EK L+ L +L K L + +S
Sbjct: 537 LKGEIKSLKKELEKLEELKKKLAELEKKLDELEEELAELLKELEELGFESVEELEERLKE 596
Query: 100 -EKLYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLIS 158
E YN Y E ++ L+ + +K L E+ L K +++ + +
Sbjct: 597 LEPFYNEYLELKDAEKELE------REEKELKKLEEELDKAFEELAETEKRLEELRKELE 650
Query: 159 EKKKRLTQE 167
E +K+ ++E
Sbjct: 651 ELEKKYSEE 659
>gnl|CDD|220623 pfam10186, Atg14, UV radiation resistance protein and
autophagy-related subunit 14. The Atg14 or Apg14
proteins are hydrophilic proteins with a predicted
molecular mass of 40.5 kDa, and have a coiled-coil motif
at the N terminus region. Yeast cells with mutant Atg14
are defective not only in autophagy but also in sorting
of carboxypeptidase Y (CPY), a vacuolar-soluble
hydrolase, to the vacuole. Subcellular fractionation
indicate that Apg14p and Apg6p are peripherally
associated with a membrane structure(s). Apg14p was
co-immunoprecipitated with Apg6p, suggesting that they
form a stable protein complex. These results imply that
Apg6/Vps30p has two distinct functions: in the
autophagic process and in the vacuolar protein sorting
pathway. Apg14p may be a component specifically required
for the function of Apg6/Vps30p through the autophagic
pathway. There are 17 auto-phagosomal component proteins
which are categorized into six functional units, one of
which is the AS-PI3K complex (Vps30/Atg6 and Atg14). The
AS-PI3K complex and the Atg2-Atg18 complex are essential
for nucleation, and the specific function of the AS-PI3K
apparently is to produce phosphatidylinositol
3-phosphate (PtdIns(3)P) at the pre-autophagosomal
structure (PAS). The localisation of this complex at the
PAS is controlled by Atg14. Autophagy mediates the
cellular response to nutrient deprivation, protein
aggregation, and pathogen invasion in humans, and
malfunction of autophagy has been implicated in multiple
human diseases including cancer. This effect seems to be
mediated through direct interaction of the human Atg14
with Beclin 1 in the human phosphatidylinositol 3-kinase
class III complex.
Length = 307
Score = 33.5 bits (77), Expect = 0.12
Identities = 26/136 (19%), Positives = 57/136 (41%), Gaps = 9/136 (6%)
Query: 11 LKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTL--REKIQDLE 68
L E L L E +L+ + + + + ++ L L+ +E++ +
Sbjct: 22 LYELRLDLARLLLENEELKQKVEE----ALEGATNEDGKLAADLLKLEVARKKERLNQIR 77
Query: 69 SQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRN-INSGLQLDKWATETKH 127
+++S ++++E +++LK+ LA SD ++R LQ + T+
Sbjct: 78 ARISQLKEEIEQKRERIEELKRALAQRRSDLSSASYQLEKRRASQLEKLQDE--IKRTRS 135
Query: 128 LIKGLLSEVSYKRVLL 143
+ L S ++ KR L
Sbjct: 136 KLNALHSLLAEKRSFL 151
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 31.5 bits (72), Expect = 0.32
Identities = 16/88 (18%), Positives = 38/88 (43%), Gaps = 2/88 (2%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLL--ISKKQLALKT 59
E++ L+ +L E ++L L E +L+ Q++ + +S + L
Sbjct: 73 QELAELQEELAELQEQLAELQQENQELKQELSTLEAELERLQKELARIKQLSANAIELDE 132
Query: 60 LREKIQDLESQLSTKEKDLEVNNSNLDD 87
++++ ++L + + LE N L +
Sbjct: 133 ENRELREELAELKQENEALEAENERLQE 160
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 32.0 bits (73), Expect = 0.39
Identities = 44/221 (19%), Positives = 93/221 (42%), Gaps = 16/221 (7%)
Query: 3 EMSALKAKLKEQNQRLITLNHEK---AKLEARTKANPGAHADEQEQTNLLISKKQLALKT 59
E L+ +++ +RL L EK +L+AR + + + + + L+
Sbjct: 226 EEEELEQEIEALEERLAELEEEKERLEELKARLLEIESLELEALKIREEELRELERLLEE 285
Query: 60 LREKIQDLE------SQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNIN 113
L EKI+ LE +L + + L L++L + L ++ EKL + +
Sbjct: 286 LEEKIERLEELEREIEELEEELEGLRALLEELEELLEKLKSLEERLEKLEEKLEKLESEL 345
Query: 114 SGLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVK 173
L +K E L++ L E+ + L+ ++ +R + E + L +E+ E
Sbjct: 346 EELAEEK--NELAKLLEERLKELEERLEELEKELEKALERLKQLEEAIQELKEELAE--- 400
Query: 174 LLTNAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRL 214
L+ A+ ++L E+ + ++ L E + +++L
Sbjct: 401 -LSAALEEIQEELEELEKELEELER-ELEELEEEIKKLEEQ 439
Score = 29.3 bits (66), Expect = 3.0
Identities = 38/224 (16%), Positives = 92/224 (41%), Gaps = 13/224 (5%)
Query: 1 MAEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTL 60
E+ L+ +L+E + LI L + L+ + E L K++L L+ L
Sbjct: 500 REEIEELEKELRELEEELIELLELEEALKEELEEK--LEKLENLLEELEELKEKLQLQQL 557
Query: 61 REKIQDLESQLSTKEKDLEVNNSN------LDDLKKTLANMMSDSEKLYNVYAEKRNINS 114
+E+++ LE +L ++ LE L++L++ L + ++L ++ +
Sbjct: 558 KEELRQLEDRLQELKELLEELRLLRTRKEELEELRERLKELKKKLKELEERLSQLEELLQ 617
Query: 115 GLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISE-KKKRLTQEITEMVK 173
L+L + E ++ E+ + L ++ + Q + E ++K E +
Sbjct: 618 SLELSEAENE----LEEAEEELESELEKLNLQAELEELLQAALEELEEKVEELEAEIRRE 673
Query: 174 LLTNAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRLTDH 217
L + ++ +L ++ + ++ E + L++L +
Sbjct: 674 LQRIENEEQLEEKLEELEQLEEELEQLREELEELLKKLGEIEQL 717
>gnl|CDD|239423 cd03307, Mta_CmuA_like, MtaA_CmuA_like family. MtaA/CmuA, also
MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M
isozymes, are methylcobamide:Coenzyme M
methyltransferases, which play a role in metabolic
pathways of methane formation from various substrates,
such as methylated amines and methanol. Coenzyme M,
2-mercaptoethylsulfonate or CoM, is methylated during
methanogenesis in a reaction catalyzed by three
proteins. A methyltransferase methylates the corrinoid
cofactor, which is bound to a second polypeptide, a
corrinoid protein. The methylated corrinoid protein then
serves as a substrate for MT2-A and related enzymes,
which methylate CoM.
Length = 326
Score = 31.9 bits (73), Expect = 0.39
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 13/86 (15%)
Query: 186 LAYKLNEICDSKQKTLNEKKVTLEQLSRLTDHCIEFVNNGLNTGSDM----------ALL 235
LA L + + + + + + E L LT+ CIE+ L G+D+ L+
Sbjct: 141 LASHLAGVENFLKWLIKKPEKVREFLEFLTEACIEYAKAQLEAGADIITIADPTASPELI 200
Query: 236 SSKAYKRVLL---KSAMKVIDDRPTI 258
S + Y+ L K +K + PTI
Sbjct: 201 SPEFYEEFALPYHKKIVKELHGCPTI 226
>gnl|CDD|222949 PHA02947, PHA02947, S-S bond formation pathway protein;
Provisional.
Length = 215
Score = 30.9 bits (70), Expect = 0.51
Identities = 18/67 (26%), Positives = 33/67 (49%), Gaps = 1/67 (1%)
Query: 46 TNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNV 105
N ++ K+L+ L + +++ S L KE+ E+ N DL + +S+ E+ N
Sbjct: 52 INKCLNNKRLSFTLLIKTFKEVISTLPEKERR-ELANEIGIDLDNDDPSYVSELERNCNA 110
Query: 106 YAEKRNI 112
A+ NI
Sbjct: 111 SADVNNI 117
>gnl|CDD|200553 cd10927, CE4_u3, Putative catalytic domain of uncharacterized
bacterial proteins from the carbohydrate esterase 4
superfamily. This family corresponds to a group of
uncharacterized bacterial proteins with high sequence
similarity to the catalytic domain of the six-stranded
barrel rhizobial NodB-like proteins, which remove
N-linked or O-linked acetyl groups from cell wall
polysaccharides and belong to the larger carbohydrate
esterase 4 (CE4) superfamily.
Length = 227
Score = 30.9 bits (70), Expect = 0.56
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 6/41 (14%)
Query: 249 MKVIDDRPTIPEDTSYKITLKSPSSSTSSKSVTPPSSSVNI 289
+V+ + P I K+ L P S + K V + VNI
Sbjct: 130 ARVLAEIPDI------KVWLYKPESDVAGKFVLRRINKVNI 164
>gnl|CDD|220410 pfam09798, LCD1, DNA damage checkpoint protein. This is a family
of proteins which regulate checkpoint kinases. In
Schizosaccharomyces pombe this protein is called Rad26
and in Saccharomyces cerevisiae it is called LCD1.
Length = 648
Score = 31.3 bits (71), Expect = 0.57
Identities = 52/237 (21%), Positives = 93/237 (39%), Gaps = 30/237 (12%)
Query: 60 LREKIQDLESQLSTKEKDLEVNNSNLDDLK-KTLANMMSDSEKLYNVYAEKRNINSGLQL 118
LR+K+ L+ Q K+++ S +++LK K + ++L ++ E++ +
Sbjct: 2 LRDKLDMLQQQ---KQEERNKQKSRVNELKEKHDQELQKLKQELQSLEDERKFLV----- 53
Query: 119 DKWATETKHLIKG-LLSEVSYKRVLLKS--AMKVIDDRQNLISEKKKRLTQEITEMVKLL 175
E + L L +E+S LLK+ A + D+ Q ++KKR + E+V L
Sbjct: 54 ----LEQRGLSANDLRTELSPPSNLLKTSDASHIADESQPNSIKQKKREISPVKELVPLN 109
Query: 176 TNAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQLSRL-TDHCIEFVNNGLNTGSDMAL 234
N I K L K K TLE L+ + D E + S L
Sbjct: 110 PNRIIKDDKSLFLD----HILNHKIEGSKLSTLEMLNHIKLDKIDEILGKNKKISSGDPL 165
Query: 235 LSSKAYKRVLLKSAMKVIDDRPTIPEDTSYKITLKSPSSSTSSKSVTPPSSSVNIPL 291
K+ +LL+ + + D L++ + S V P +++P
Sbjct: 166 --GKSIVSLLLRL-------KSNLKLDELVDTVLEALADLIKSIIVLPKELKLSVPF 213
>gnl|CDD|234141 TIGR03185, DNA_S_dndD, DNA sulfur modification protein DndD. This
model describes the DndB protein encoded by an operon
associated with a sulfur-containing modification to DNA.
The operon is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndD is described
as a putative ATPase. The small number of examples known
so far include species from among the Firmicutes,
Actinomycetes, Proteobacteria, and Cyanobacteria [DNA
metabolism, Restriction/modification].
Length = 650
Score = 31.2 bits (71), Expect = 0.61
Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 2 AEMSALKAKLKEQNQRLITLN--HEKAKLEARTKANPGAHADEQEQTNLLISK-----KQ 54
E+ +A+++E ++L TL E + K +A E E+ + K K+
Sbjct: 435 NELFRSEAEIEELLRQLETLKEAIEALRKTLDEKTKQKINAFELERAITIADKAKKTLKE 494
Query: 55 LALKTLREKIQDLESQLSTKEKDL 78
K L K+Q LE +++ K L
Sbjct: 495 FREKLLERKLQQLEEEITKSFKKL 518
>gnl|CDD|216366 pfam01208, URO-D, Uroporphyrinogen decarboxylase (URO-D).
Length = 338
Score = 30.2 bits (69), Expect = 1.3
Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 8/51 (15%)
Query: 211 LSRLTDHCIEFVNNGLNTGSDM--------ALLSSKAYKRVLLKSAMKVID 253
L +LTD IE++ + G+D LLS + ++ +L +++D
Sbjct: 175 LDKLTDAVIEYLKAQIEAGADAIQIFDSWAGLLSPEDFREFVLPYLKRIVD 225
>gnl|CDD|240411 PTZ00419, PTZ00419, valyl-tRNA synthetase-like protein;
Provisional.
Length = 995
Score = 30.4 bits (69), Expect = 1.4
Identities = 30/160 (18%), Positives = 56/160 (35%), Gaps = 23/160 (14%)
Query: 25 KAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSN 84
A L K P + ++ + + + L + KI + +E+
Sbjct: 848 IATLGIPNKTKPDCYVTAKDAELIELIESAENLISTLAKIGSVSVIPPIEEEAEVPKGCG 907
Query: 85 LDDL-KKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVS---YKR 140
D + K + + D ++ E + +L K + ++ L ++S Y+
Sbjct: 908 FDVVDNKVIIYLNLDEF--IDLKKELAKLEK--KLAK----LQKSLESYLKKISIPNYE- 958
Query: 141 VLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAIN 180
KV +D + L EK L +EI K L AI
Sbjct: 959 ------DKVPEDVRKLNDEKIDELNEEI----KQLEQAIE 988
>gnl|CDD|213361 cd12827, EcCorA_ZntB-like_u2, uncharacterized bacterial subfamily
of the Escherichia coli CorA-Salmonella typhimurium ZntB
family. A uncharacterized subfamily of the Escherichia
coli CorA-Salmonella typhimurium ZntB (EcCorA-ZntB_like)
family of the MIT superfamily of essential membrane
proteins involved in transporting divalent cations
(uptake or efflux) across membranes.The EcCorA-ZntB-like
family includes the Mg2+ transporters Escherichia coli
and Salmonella typhimurium CorAs, which can also
transport Co2+, and Ni2+. Structures of the
intracellular domain of EcCorA-ZntB-like family members,
Vibrio parahaemolyticus and Salmonella typhimurium ZntB,
form funnel-shaped homopentamers, the tip of the funnel
is formed from two C-terminal transmembrane (TM) helices
from each monomer, and the large opening of the funnel
from the N-terminal cytoplasmic domains. The GMN
signature motif of the MIT superfamily occurs just after
TM1, mutation within this motif is known to abolish Mg2+
transport through Salmonella typhimurium CorA. Natural
variants such as GVN and GIN, such as occur in some ZntB
family proteins, may be associated with the transport of
different divalent cations, such as zinc and cadmium.
The functional diversity of MIT transporters may also be
due to minor structural differences regulating gating,
substrate selection, and transport.
Length = 289
Score = 29.8 bits (68), Expect = 1.4
Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 13/88 (14%)
Query: 14 QNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLL------ISKKQL-ALKTLREKIQD 66
RLIT+ + + L + D +T L I+ L L+ + ++ +
Sbjct: 74 TKDRLITICNHETDLLDDFLEGRVKNFDTSSKTRFLLQILYRIATSYLKYLRQINKERDE 133
Query: 67 LESQL--STKEKDLEVNNSNLDDLKKTL 92
LE +L STK K+L L DL+K+L
Sbjct: 134 LEQELRKSTKNKELF----QLLDLEKSL 157
>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 29.6 bits (67), Expect = 1.5
Identities = 31/171 (18%), Positives = 63/171 (36%), Gaps = 28/171 (16%)
Query: 17 RLITLNHEKAKLEARTKANPGAHAD---EQEQTNLLISKKQLALKTL------------- 60
+ L+ EK +LE R K A E E N + ++ L+ L
Sbjct: 11 AIQKLDLEKDRLEPRIKEIRKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQE 70
Query: 61 -REKIQDLESQLS--TKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQ 117
RE+I+ E +LS E++L N + K+ + ++ + +L + L+
Sbjct: 71 IRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLK 130
Query: 118 LDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEI 168
E ++ L+ + I + +S K++ L +++
Sbjct: 131 ERLERLEK---------NLAEAEARLEEEVAEIREEGQELSSKREELKEKL 172
>gnl|CDD|217933 pfam04156, IncA, IncA protein. Chlamydia trachomatis is an
obligate intracellular bacterium that develops within a
parasitophorous vacuole termed an inclusion. The
inclusion is non-fusogenic with lysosomes but intercepts
lipids from a host cell exocytic pathway. Initiation of
chlamydial development is concurrent with modification
of the inclusion membrane by a set of C.
trachomatis-encoded proteins collectively designated
Incs. One of these Incs, IncA, is functionally
associated with the homotypic fusion of inclusions. This
family probably includes members of the wider Inc family
rather than just IncA.
Length = 186
Score = 29.3 bits (66), Expect = 1.8
Identities = 21/104 (20%), Positives = 44/104 (42%), Gaps = 3/104 (2%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLA---LK 58
E+S LK +L E + L L A+LE+ + +E L + + +K
Sbjct: 79 GELSELKQQLSELQEELEDLEERIAELESELEDLKEDLQLLRELLKSLEERLESLEESIK 138
Query: 59 TLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKL 102
L +++++L L + ++L L + + L + + + L
Sbjct: 139 ELAKELRELRQDLREEVEELREELERLQENLQRLQEAIQELQSL 182
>gnl|CDD|185600 PTZ00410, PTZ00410, NAD-dependent SIR2; Provisional.
Length = 349
Score = 29.5 bits (66), Expect = 1.9
Identities = 17/65 (26%), Positives = 25/65 (38%), Gaps = 6/65 (9%)
Query: 230 SDMALLSSKAYKRVLLK------SAMKVIDDRPTIPEDTSYKITLKSPSSSTSSKSVTPP 283
+ +A + K RVL + D T S +S SSS+ S S +
Sbjct: 222 ALLACVVPKDVPRVLFNLERVGGLMFRFPTDPLTTFHADSVAKEGRSSSSSSRSSSDSST 281
Query: 284 SSSVN 288
SSS +
Sbjct: 282 SSSSD 286
>gnl|CDD|182809 PRK10884, PRK10884, SH3 domain-containing protein; Provisional.
Length = 206
Score = 29.2 bits (66), Expect = 2.0
Identities = 12/37 (32%), Positives = 23/37 (62%)
Query: 56 ALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTL 92
+ L+E+ Q L++QL +K ++ N LDD ++T+
Sbjct: 133 VINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTI 169
>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 = 29.2 bits (66), Expect = 2.7
Identities = 7/42 (16%), Positives = 21/42 (50%)
Query: 53 KQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLAN 94
+ ++ L+++++ LE ++ E ++E L+ K +
Sbjct: 93 IEAQIEELKKELKKLEEKIEQLEAEIEKKEEELEKAKNKFLD 134
Score = 28.8 bits (65), Expect = 4.1
Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 6/92 (6%)
Query: 3 EMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLRE 62
+ A+ ++E N+++ L EK K + + + A E I Q K L +
Sbjct: 369 IIDAINELIREHNEKIDNLKKEKNKAKKKLWLHLVAELKE------DIDAYQKEKKGLEK 422
Query: 63 KIQDLESQLSTKEKDLEVNNSNLDDLKKTLAN 94
I LE ++ E +++ + +L+K L N
Sbjct: 423 AINSLEKEIKQLEAEIKALEKEIKELEKQLTN 454
>gnl|CDD|235519 PRK05588, PRK05588, histidinol-phosphatase; Provisional.
Length = 255
Score = 28.8 bits (65), Expect = 2.8
Identities = 18/56 (32%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 53 KQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAE 108
K++ +E I ++ L KEK LE+N LDD K+++ N++ K+Y + E
Sbjct: 157 KEIYYDEFKEIIDEILKVLIEKEKVLEINTRRLDD-KRSVENLV----KIYKRFYE 207
>gnl|CDD|224000 COG1074, RecB, ATP-dependent exoDNAse (exonuclease V) beta subunit
(contains helicase and exonuclease domains) [DNA
replication, recombination, and repair].
Length = 1139
Score = 29.4 bits (66), Expect = 2.8
Identities = 28/170 (16%), Positives = 64/170 (37%), Gaps = 11/170 (6%)
Query: 24 EKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVNNS 83
+KA + + K A E E L K+ + E + +LS + ++ +
Sbjct: 218 QKALIILQLKQAWLASLLELEALILGGLDKRASSL---ENLLKWIEKLSAWDNFERLDKA 274
Query: 84 NLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVSYKRVLL 143
L+K +K R ++ ++ L E+ L
Sbjct: 275 LPTKLEKIFFQKK-LKKKTKEAKLLARPP----LHAEFEEIENRIL--LADELLRLAPRL 327
Query: 144 KSAMKVIDD-RQNLISEKKKRLTQEITEMVKLLTNAINLRGKQLAYKLNE 192
++ +K++++ + +EK++R + +++ L + G++LA L E
Sbjct: 328 RALLKLLEELIERYDAEKRQRNALDFDDLIHRLAKLLTSEGEELAESLRE 377
>gnl|CDD|236892 PRK11281, PRK11281, hypothetical protein; Provisional.
Length = 1113
Score = 29.5 bits (67), Expect = 2.8
Identities = 43/222 (19%), Positives = 82/222 (36%), Gaps = 48/222 (21%)
Query: 6 ALKAKLKEQNQRLITLNHEKAKLEARTK------ANPGAHADEQEQTNLLISKKQLALKT 59
AL K+ Q + L + A+ A+ + DE+ + L L+L+
Sbjct: 70 ALLDKIDRQKEETEQLKQQLAQAPAKLRQAQAELEALKDDNDEETRETL----STLSLRQ 125
Query: 60 LREKIQDLESQLSTKEKDLEVNNSNLDDLK----KTLANMMSDSE-------KLYNVYAE 108
L ++ QL + DL NS L L+ + A + ++S+ L
Sbjct: 126 LESRLAQTLDQLQNAQNDLAEYNSQLVSLQTQPERAQAALYANSQRLQQIRNLLKGGKVG 185
Query: 109 KRNINSGLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVID---DRQNLISEKKKRLT 165
+ + + E L ++ +R L+ ++ D +++ ++ + +RL
Sbjct: 186 GKALRPSQR-VLLQAEQALLN----AQNDLQRKSLEGNTQLQDLLQKQRDYLTARIQRLE 240
Query: 166 QEITEMVKLLTNAINLRGKQLAYKLNEICDSKQKTLNEKKVT 207
++ LL AIN SK+ TL+EK V
Sbjct: 241 HQLQ----LLQEAIN---------------SKRLTLSEKTVQ 263
>gnl|CDD|152058 pfam11622, DUF3251, Protein of unknown function (DUF3251). This
family of proteins with unknown function appears to be
restricted to Enterobacteriaceae. Some members if this
family are annotated as putative lipoprotein YajI
however this cannot be confirmed.
Length = 156
Score = 28.3 bits (63), Expect = 2.8
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 3 EMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAH 39
E+ L + NQ L TLN + K+E + N +
Sbjct: 5 EVPQLHQSVSTLNQELTTLNQQTVKIEQQNALNAKST 41
>gnl|CDD|115307 pfam06637, PV-1, PV-1 protein (PLVAP). This family consists of
several PV-1 (PLVAP) proteins which seem to be specific
to mammals. PV-1 is a novel protein component of the
endothelial fenestral and stomatal diaphragms. The
function of this family is unknown.
Length = 442
Score = 29.2 bits (65), Expect = 3.1
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 10/88 (11%)
Query: 14 QNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALK---TLREKIQDLESQ 70
Q Q+L +A EA+ KA A A E + + QLAL+ LR + +L +
Sbjct: 305 QRQKLEAEQAAQAAQEAKAKAEKEAQAREAKLQAECARQTQLALEEKAALRAERDNLAKE 364
Query: 71 LSTKEKDLE-------VNNSNLDDLKKT 91
L K+++ E + S LD K
Sbjct: 365 LEAKKREAEQLRMELAIRISALDTCIKA 392
>gnl|CDD|188306 TIGR03319, RNase_Y, ribonuclease Y. Members of this family are
RNase Y, an endoribonuclease. The member from Bacillus
subtilis, YmdA, has been shown to be involved in
turnover of yitJ riboswitch [Transcription, Degradation
of RNA].
Length = 514
Score = 29.1 bits (66), Expect = 3.2
Identities = 29/117 (24%), Positives = 53/117 (45%), Gaps = 17/117 (14%)
Query: 57 LKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGL 116
LK R ++Q LE +L +E+ L+ +LD ++ L EK EK N
Sbjct: 71 LKERRNELQRLERRLLQREETLDRKMESLDKKEENL-------EK-----KEKELSNKEK 118
Query: 117 QLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVK 173
LD+ E + LI E+ +R+ S + + ++ L+ E ++ E +++K
Sbjct: 119 NLDEKEEELEELIAEQREEL--ERI---SGLTQEEAKEILLEEVEEEARHEAAKLIK 170
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 29.2 bits (65), Expect = 3.3
Identities = 45/214 (21%), Positives = 86/214 (40%), Gaps = 12/214 (5%)
Query: 9 AKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLRE---KIQ 65
A LK QN L E K+ + K + +N + + +E K++
Sbjct: 274 ANLKTQNDNLYEKIQEAMKISQKIKTLREKWRALKSDSNKYENYVNAMKQKSQEWPGKLE 333
Query: 66 DLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGL--------Q 117
L+S++ KE++++ SN+D+L K L +E+ + E+ + L +
Sbjct: 334 KLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDK 393
Query: 118 LDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEIT-EMVKLLT 176
L K K +G+ + S ++ I ++ I + +I E +
Sbjct: 394 LTKSVKSRKLEAQGIFKSLEKTLRQYDSLIQNITRSRSQIGHNVNDSSLKINIEQLFPKG 453
Query: 177 NAINLRGKQLAYKLNEICDSKQKTLNEKKVTLEQ 210
+ IN K+ +LN+ + KT K +TLE+
Sbjct: 454 SGINESIKKSILELNDEIQERIKTEENKSITLEE 487
>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein. This domain is found
in cell division proteins which are required for
kinetochore-spindle association.
Length = 312
Score = 28.8 bits (65), Expect = 3.6
Identities = 22/87 (25%), Positives = 34/87 (39%)
Query: 7 LKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQD 66
LK K + L LN K KL R A ++ + L L +EK++
Sbjct: 156 LKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKK 215
Query: 67 LESQLSTKEKDLEVNNSNLDDLKKTLA 93
L ++ K K LE L +L+ +
Sbjct: 216 LLQEIMIKVKKLEELEEELQELESKIE 242
Score = 27.3 bits (61), Expect = 9.5
Identities = 27/138 (19%), Positives = 59/138 (42%), Gaps = 6/138 (4%)
Query: 79 EVNNSNLDDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVSY 138
E + NL+ LK+ +M + E L ++ + R+ L+ E + L +
Sbjct: 147 EGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALE-----EELRQLKQLEDELEDC 201
Query: 139 KRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINLRGKQLAYKLNEICDSKQ 198
L A + + I K K+L +E+ E ++ L + I + + EI ++++
Sbjct: 202 DPTELDRAKEKLKKLLQEIMIKVKKL-EELEEELQELESKIEDLTNKKSELNTEIAEAEK 260
Query: 199 KTLNEKKVTLEQLSRLTD 216
K + T +++ +L +
Sbjct: 261 KLEQCRGFTFKEIEKLKE 278
>gnl|CDD|100094 cd05801, PGM_like3, This bacterial PGM-like
(phosphoglucomutase-like) protein of unknown function
belongs to the alpha-D-phosphohexomutase superfamily.
The alpha-D-phosphohexomutases include several related
enzymes that catalyze a reversible intramolecular
phosphoryl transfer on their sugar substrates. Other
members of this superfamily include phosphoglucosamine
mutase (PNGM), phosphoacetylglucosamine mutase (PAGM),
the bacterial phosphomannomutase ManB, the bacterial
phosphoglucosamine mutase GlmM, and the bifunctional
phosphomannomutase/phosphoglucomutase (PMM/PGM). Each of
these enzymes has four domains with a centrally located
active site formed by four loops, one from each domain.
All four domains are included in this alignment model.
Length = 522
Score = 28.8 bits (65), Expect = 3.6
Identities = 24/104 (23%), Positives = 41/104 (39%), Gaps = 23/104 (22%)
Query: 26 AKLEARTKANPGAHADEQEQ---------TNLLISKKQLA-LKTLREKIQDLESQLSTKE 75
A++ A T +PG E + + + +Q A LK L + + + +
Sbjct: 402 AEILAVTGKDPGQLYQELTERFGEPYYARIDAPATPEQKARLKKLS--PEQVTATELAGD 459
Query: 76 KDLEV------NNSNLDDLKKTLAN-----MMSDSEKLYNVYAE 108
L N +++ LK T AN S +E +Y +YAE
Sbjct: 460 PILAKLTRAPGNGASIGGLKVTTANGWFAARPSGTEDVYKIYAE 503
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 28.9 bits (65), Expect = 3.6
Identities = 17/73 (23%), Positives = 31/73 (42%), Gaps = 2/73 (2%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKL--EARTKANPGAHADEQEQTNLLISKKQLALKT 59
+ LK K+KEQ +R + N+E+ E + + D Q + L + +
Sbjct: 380 RKYERLKQKIKEQLERDLEKNNERLAAIREEKDRQKAAIEEDLQALESQLRQQLEAGKLE 439
Query: 60 LREKIQDLESQLS 72
E+ +LE +L
Sbjct: 440 FNEEEYELELRLG 452
>gnl|CDD|227278 COG4942, COG4942, Membrane-bound metallopeptidase [Cell division
and chromosome partitioning].
Length = 420
Score = 28.5 bits (64), Expect = 4.3
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 51 SKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLA 93
+K + LK+L +I LE+QL DL+ + DL L
Sbjct: 62 AKLEKQLKSLETEIASLEAQLIETADDLKKLRKQIADLNARLN 104
Score = 27.8 bits (62), Expect = 7.2
Identities = 21/91 (23%), Positives = 37/91 (40%), Gaps = 10/91 (10%)
Query: 6 ALKAKLKEQNQRLITLNHEKAKLEA---RTKANPGAHADEQEQTNLLISKKQLALKTLRE 62
A ++ L L +A++ A +Q + L+ +++ KTL +
Sbjct: 158 ARAERIDALKATLKQLAAVRAEIAAEQAELTTLLSEQRAQQAKLAQLLEERK---KTLAQ 214
Query: 63 KIQDLESQLSTKEKDLEVNNSNLDDLKKTLA 93
L S+LS +K LE +N LK +A
Sbjct: 215 ----LNSELSADQKKLEELRANESRLKNEIA 241
>gnl|CDD|237178 PRK12705, PRK12705, hypothetical protein; Provisional.
Length = 508
Score = 28.5 bits (64), Expect = 4.5
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 5 SALKAKLKEQNQRLITLNHEKAKLEARTKANP 36
L A+L+E+ + + E+A LEA KA
Sbjct: 149 KLLDAELEEEKAQRVKKIEEEADLEAERKAQN 180
>gnl|CDD|191367 pfam05761, 5_nucleotid, 5' nucleotidase family. This family of
eukaryotic proteins includes 5' nucleotidase enzymes,
such as purine 5'-nucleotidase EC:3.1.3.5.
Length = 448
Score = 28.4 bits (64), Expect = 5.0
Identities = 13/67 (19%), Positives = 25/67 (37%), Gaps = 9/67 (13%)
Query: 40 ADEQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDS 99
EQ + L L L E++ D + +L +L +L + +
Sbjct: 334 NTEQYRFEELQ-----RLDILLERLYDHLDVHA----ELSTLRPDLSELDAEIRELRRAM 384
Query: 100 EKLYNVY 106
++L+N Y
Sbjct: 385 KELFNPY 391
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 28.6 bits (64), Expect = 5.2
Identities = 18/87 (20%), Positives = 40/87 (45%), Gaps = 2/87 (2%)
Query: 24 EKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVNNS 83
EK + A A + E+ +++ L+ L+E+I +LES + +++ S
Sbjct: 241 EKVEQAATAAAEVPPAEMDTEED--RTKEREAELEALQEQIDELESSIEEVLSEIKALAS 298
Query: 84 NLDDLKKTLANMMSDSEKLYNVYAEKR 110
+ + + L + ++E+L Y K+
Sbjct: 299 KIKQVNEELTTVRQENEELEEEYKIKK 325
>gnl|CDD|236427 PRK09246, PRK09246, amidophosphoribosyltransferase; Provisional.
Length = 501
Score = 28.2 bits (64), Expect = 5.3
Identities = 18/50 (36%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 80 VNNSNL---DDLKKTLA-------NMMSDSEKLYNVYAEKRNINSGLQLD 119
+N NL ++L+K L N SDSE L NV+A + GL L
Sbjct: 99 AHNGNLTNAEELRKELFEKDRRHINTTSDSEVLLNVFAHELQKFRGLPLT 148
>gnl|CDD|237255 PRK12900, secA, preprotein translocase subunit SecA; Reviewed.
Length = 1025
Score = 28.6 bits (64), Expect = 5.4
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 5/56 (8%)
Query: 40 ADEQ--EQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEVN---NSNLDDLKK 90
+D+ E+ L S+ + AL+ + +K +DLE +L + LE N LD L K
Sbjct: 38 SDDALREKGMELKSRVRGALEPIEQKKKDLEKKLDNPDISLEEAESINEELDTLAK 93
>gnl|CDD|235008 PRK02135, PRK02135, hypothetical protein; Provisional.
Length = 201
Score = 27.9 bits (63), Expect = 5.5
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 199 KTLNEKKVTLEQLSRLTDHCIEFVNNGLNT 228
K L +K++L DHCI ++N L+
Sbjct: 167 KRLGAEKISLGPKMLHADHCITLIHNELDR 196
>gnl|CDD|237961 PRK15408, PRK15408, autoinducer 2-binding protein lsrB;
Provisional.
Length = 336
Score = 28.2 bits (63), Expect = 5.5
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 9/61 (14%)
Query: 219 IEFVNNGLNTGSDMALLSS-------KAYKRVLLKSAMKVID-DRPTIPEDTSYKITLKS 270
++ +NN +N G + ++S+ A KR ++ +KV+ D T PE SY I +
Sbjct: 70 VQLINNFVNQGYNAIIVSAVSPDGLCPALKRA-MQRGVKVLTWDSDTKPECRSYYINQGT 128
Query: 271 P 271
P
Sbjct: 129 P 129
>gnl|CDD|221591 pfam12470, SUFU_C, Suppressor of Fused Gli/Ci N terminal binding
domain. This domain family is found in eukaryotes, and
is typically between 192 and 219 amino acids in length.
The family is found in association with pfam05076. There
is a conserved HGRHFT sequence motif. This family is the
C terminal domain of the Suppressor of Fused protein
(Su(fu)). Su(fu) is a repressor of the Gli and Ci
transcription factors of the Hedgehog signalling
cascade. It functions by binding these proteins and
preventing their translocation to the nucleus. The C
terminal domain is only found in eukaryotic Su(fu)
proteins; it is not present in bacterial homologues. The
C terminal domain binds to the N terminal of Gli/Ci
while the N terminal of Su(fu) binds to the C terminal
of Gli/Ci. This dual binding mechanism is likely an
evolutionary advancement in this signalling cascade
which is not present in bacterial homologues.
Length = 201
Score = 27.5 bits (61), Expect = 6.6
Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 1/68 (1%)
Query: 220 EFVNNGLNT-GSDMALLSSKAYKRVLLKSAMKVIDDRPTIPEDTSYKITLKSPSSSTSSK 278
E + L GSD+A +++ + L K A+ D +DT + S +
Sbjct: 2 EQLEKDLEKDGSDLAGVNADFTFKELSKPAIDKEDVDSIEDKDTEQIRSPLSEGLEIKEE 61
Query: 279 SVTPPSSS 286
PP+ S
Sbjct: 62 PSEPPTLS 69
>gnl|CDD|233791 TIGR02231, TIGR02231, conserved hypothetical protein. This family
consists of proteins over 500 amino acids long in
Caenorhabditis elegans and several bacteria (Pseudomonas
aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans,
etc.). The function is unknown.
Length = 525
Score = 28.2 bits (63), Expect = 6.9
Identities = 25/127 (19%), Positives = 44/127 (34%), Gaps = 18/127 (14%)
Query: 54 QLALKTLREKIQDLESQLSTKEK---DLEVNNSNLDDLKKTLANMMSDSEKLYNVYAEKR 110
+ + E++ +L Q+ E DLE L L K L ++ E L +
Sbjct: 63 ERTSRPDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLEDI---REGLTEPIKDSA 119
Query: 111 NINSGLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITE 170
N L +W + L + + + R E +K+L++ E
Sbjct: 120 KRNEPD-LKEWFQ--------AFDFNGSEIERLLTEDREAERRI---RELEKQLSELQNE 167
Query: 171 MVKLLTN 177
+ LLT
Sbjct: 168 LNALLTG 174
>gnl|CDD|113356 pfam04582, Reo_sigmaC, Reovirus sigma C capsid protein.
Length = 326
Score = 28.0 bits (62), Expect = 7.3
Identities = 15/49 (30%), Positives = 26/49 (53%)
Query: 56 ALKTLREKIQDLESQLSTKEKDLEVNNSNLDDLKKTLANMMSDSEKLYN 104
A +L E + + S+LS DL+ ++LDD K TL +++ + L
Sbjct: 43 ATASLSESVSTISSRLSDLSADLQDMTTSLDDAKATLNGLITTVQALQT 91
>gnl|CDD|225519 COG2972, COG2972, Predicted signal transduction protein with a
C-terminal ATPase domain [Signal transduction
mechanisms].
Length = 456
Score = 27.8 bits (62), Expect = 7.3
Identities = 22/120 (18%), Positives = 45/120 (37%), Gaps = 9/120 (7%)
Query: 131 GLLSEVSYKRVLLKSAMKVIDDRQNLISEKKKRLTQEITEMVKLLTNAINLRGKQLAYKL 190
L+ + +S + I + R+ +K ++ IN ++L Y +
Sbjct: 188 FLVVILLLSSFSSRSILLPILG----LILLLSRIALGYLSELKEISETINEMEERLEYLI 243
Query: 191 NEICDSKQKTLNEKKVTLEQLSRLTDHCIEFVNNGLNTGSDMALLSSKAYKRVLLKSAMK 250
E S ++ E ++ Q S++ H F+ N L T +A ++K+ K
Sbjct: 244 EEN-YSLEQEQLEAELRALQ-SQINPH---FLYNTLETIRMLAEEDDPEEAAKVVKALSK 298
>gnl|CDD|227822 COG5535, RAD4, DNA repair protein RAD4 [DNA replication,
recombination, and repair].
Length = 650
Score = 27.9 bits (62), Expect = 7.4
Identities = 28/121 (23%), Positives = 44/121 (36%), Gaps = 16/121 (13%)
Query: 33 KANPGAHADEQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDL-EVNNSNLDDLKKT 91
+ ++ D+ + N I KK ++ K E +S +EKD+ E DL T
Sbjct: 3 RDLENSYNDQARRKNSKIEKKNVSFKEEEEVDSSFDSFYQDEEKDIDEEPVELDGDLTVT 62
Query: 92 LANMMSDSEKLYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVSYKRVLLKSAMKVID 151
+ N+ D K+ + Y++ N LLKS K ID
Sbjct: 63 VNNIRRDRSKV-SKYSDDHNEKLQSSQLHLIMIPFM--------------LLKSRNKWID 107
Query: 152 D 152
D
Sbjct: 108 D 108
>gnl|CDD|214661 smart00435, TOPEUc, DNA Topoisomerase I (eukaryota). DNA
Topoisomerase I (eukaryota), DNA topoisomerase V,
Vaccina virus topoisomerase, Variola virus
topoisomerase, Shope fibroma virus topoisomeras.
Length = 391
Score = 27.7 bits (62), Expect = 8.0
Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 3/76 (3%)
Query: 8 KAKLKEQNQRLITLNHEKAKLEARTKANPG---AHADEQEQTNLLISKKQLALKTLREKI 64
+LK+ ++ K KL+++ + + A E+++ KK+ ++ L E+I
Sbjct: 293 LKRLKKMILLFEMISDLKRKLKSKFERDNEKLDAEVKEKKKEKKKEEKKKKQIERLEERI 352
Query: 65 QDLESQLSTKEKDLEV 80
+ LE Q + KE++ V
Sbjct: 353 EKLEVQATDKEENKTV 368
>gnl|CDD|181619 PRK09039, PRK09039, hypothetical protein; Validated.
Length = 343
Score = 27.6 bits (62), Expect = 9.2
Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 8/63 (12%)
Query: 50 ISKKQLALKTLREKIQDLESQLSTKEKDLEVNNSNLDD----LKKTLANMMSDSEKLYNV 105
IS K AL L +I +L LS + + N +L D L+ +L+ ++ +L +
Sbjct: 48 ISGKDSALDRLNSQIAELADLLSLERQ----GNQDLQDSVANLRASLSAAEAERSRLQAL 103
Query: 106 YAE 108
AE
Sbjct: 104 LAE 106
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 27.6 bits (61), Expect = 9.6
Identities = 40/212 (18%), Positives = 83/212 (39%), Gaps = 23/212 (10%)
Query: 11 LKEQNQRLITLNHEKAKLEARTKANPGAHADEQEQTNLLISKKQLALKTLREKIQDLESQ 70
L+EQ ++L + E + D ++ N+L+ LK ++ + E +
Sbjct: 199 LEEQLEKLRNELLIRGATEGLCVHSLSKELDVLKEENMLLKDDIQFLKAELIEVAETEER 258
Query: 71 LSTKEKDLEVNNSNLDDLKKTLANMMSDSEKL----YNVYAEKRNINSGLQLDKWATETK 126
+ EK+ + +++L +L+ D KL Y+ + EK N LD+ + +
Sbjct: 259 VFKLEKERSLLDASLRELESKFIVAQEDVSKLSPLQYDCWWEKVE-NLQDLLDRATNQVE 317
Query: 127 HLI------KGLLSEVSYKRVLLKSA---------MKVIDDRQNLISEKKKRLTQEITEM 171
+ L +V LK A ++++ + L+ E+ + EI
Sbjct: 318 KAALVLDQNQDLRDKVDKLEASLKEANVSKFSSYKVELLQQKLKLLEERLQASDHEIHSY 377
Query: 172 VKLLTNAINLRGKQLAYKLNEICDSKQKTLNE 203
++L +I L+ E SK+++L
Sbjct: 378 IQLYQESIKEFQDTLSKLKEE---SKKRSLEH 406
>gnl|CDD|225707 COG3166, PilN, Tfp pilus assembly protein PilN [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 206
Score = 27.0 bits (60), Expect = 9.6
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 41 DEQEQTNLLISKKQLALKTLREKIQDLESQLSTKEKDLEV 80
EQ+Q N L++ + L +IQ L+ Q + L+V
Sbjct: 51 AEQQQRNALLTTEIALLDAEIAEIQQLKEQTQALLQRLQV 90
>gnl|CDD|233392 TIGR01391, dnaG, DNA primase, catalytic core. Members of this
family are DNA primase, a ubiquitous bacteria protein.
Most members of this family contain nearly two hundred
additional residues C-terminal to the region represented
here, but conservation between species is poor and the
C-terminal region was not included in the seed
alignment. This protein contains a CHC2 zinc finger
(pfam01807) and a Toprim domain (pfam01751) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 415
Score = 27.6 bits (62), Expect = 9.9
Identities = 17/64 (26%), Positives = 25/64 (39%)
Query: 86 DDLKKTLANMMSDSEKLYNVYAEKRNINSGLQLDKWATETKHLIKGLLSEVSYKRVLLKS 145
+ LKK L N S E L N+++ + K E LIK + + L K
Sbjct: 352 EALKKLLENSKSLIEFLIARLLSNYNLDTPEEKAKLVEELLPLIKKIPDPILRDYYLQKL 411
Query: 146 AMKV 149
A +
Sbjct: 412 AQLL 415
>gnl|CDD|204831 pfam12137, RapA_C, RNA polymerase recycling family C-terminal.
This domain is found in bacteria. This domain is about
360 amino acids in length. This domain is found
associated with pfam00271, pfam00176. The function of
this domain is not known, but structurally it forms an
alpha-beta fold in nature with a central beta-sheet
flanked by helices and loops, the beta-sheet being
mainly antiparallel and flanked by four alpha helices,
among which the two longer helices exhibit a coiled-coil
arrangement.
Length = 362
Score = 27.5 bits (62), Expect = 10.0
Identities = 17/67 (25%), Positives = 31/67 (46%), Gaps = 9/67 (13%)
Query: 2 AEMSALKAKLKEQNQRLITLNHEKAKLEARTKANPGAHADE-------QEQTNLLISKKQ 54
++ + + K+Q Q+ L+ E A+L+A NP +E +E+ + K Q
Sbjct: 293 EQLEEIIEQAKQQMQQ--QLSAELARLKALKAVNPNIRDEEIEALEQQREELLTALDKAQ 350
Query: 55 LALKTLR 61
L L +R
Sbjct: 351 LRLDAIR 357
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
0.308 0.123 0.319
Gapped
Lambda K H
0.267 0.0724 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,557,554
Number of extensions: 1262121
Number of successful extensions: 2173
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1996
Number of HSP's successfully gapped: 349
Length of query: 293
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 197
Effective length of database: 6,679,618
Effective search space: 1315884746
Effective search space used: 1315884746
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 59 (26.5 bits)