RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddB
21,608 sequences; 5,994,473 total letters
Searching..................................................done
Query= gi|254781202|ref|YP_003065615.1| hypothetical protein
CLIBASIA_05545 [Candidatus Liberibacter asiaticus str. psy62]
(864 letters)
>gnl|CDD|177329 PHA01972, PHA01972, structural protein.
Length = 828
Score = 210 bits (536), Expect = 1e-54
Identities = 189/916 (20%), Positives = 332/916 (36%), Gaps = 141/916 (15%)
Query: 1 MKPECIQVLNKAAGRELSKKELRRLEDGIVRAYVSL------DGKGLSKAER-YRLAGLK 53
M +C++ + +AAGR+L+ E++ +ED I A S+ K S A+R Y+
Sbjct: 1 MPQKCVEAVAQAAGRQLTADEIKGIEDRIKEAMRSVARKDPKGWKEESIAKRFYKTDADL 60
Query: 54 AEEDFQKELIRSVNDAIDEAYKRHQLRSDLDRVQAGVYGKSQALFNKLFFKAGSA----- 108
A ++ + I+ K+ + ++ + L +
Sbjct: 61 ARQELVHDAIKKKKRVALAIAKQAEA---TKKINEVLTADKDPAAALLGMLSRDPNEEAK 117
Query: 109 EVPLEMKIKAAETKVLSKFNEYAEVG---------SKNLG---FTLDKQFGL-DVFDEMK 155
+ +E +I A +K +++ G F +Q L D+ E+
Sbjct: 118 FLSVEQRINATRDVSKAKISDFMAALDPTTRQIFAGIATGERRFDKAQQRLLDDIVHELY 177
Query: 156 GKKTQNEQASRLVKQYFETQRELHSQAHEAGLDYKFFEN-RIPQPMSVDKLRATKKDDFV 214
G++T N A + K + + +L ++ ++AG D ++ R+PQ + K+ D +V
Sbjct: 178 GRQTGNADAKKAAKGWKKVTEDLRARFNDAGGDIGELDDWRLPQKHNRMKISKAGADAWV 237
Query: 215 RSMLDWLDLSRYKDIDGTPLSRSEIASFVGEVFAERVRSTSFKDPSIPSSEVGVKR---- 270
+ D LD S+Y DG P++ +E+ + V+ T + P S+ G
Sbjct: 238 DDVWDLLDRSKYVKKDGKPMNDAELREALYSVYNTIA--TDGMNKIDPGSKTGSGARANR 295
Query: 271 -EFERVFHFKDSQAHMDYMEHFGVSTNVNTILTSELASLSKDIVIARELGPNADSFVKQM 329
ERV HFKD+ +H+ Y FG T+V + L +S+DI + GP+ D +
Sbjct: 296 GSAERVIHFKDADSHLQYQREFG-DTSVYASMVGHLDGMSRDIGLVETFGPDPDRNFNTL 354
Query: 330 IVQTIANDQEASAGNKVLKDWLGRNKLEVRQEAMLQMWE-VMRYGETVENTGWANWMAGL 388
+ S + + + + +M Y EN W +AGL
Sbjct: 355 LDAVKTKKGTTS------------RQPTGAMKMVEPTFNMLMGYNMVEENPVWGRRVAGL 402
Query: 389 RSAAGASMLGQHPIGALLEDGFISRQM----LSRVGIDKEAIQRINKMPLKERMELLSDV 444
R+ AS LG + AL + G +S + + + + + K D
Sbjct: 403 RNLWTASKLGAAVLSALSDSGTMSMAASYNAMPPARLLRNMLSEMMP-GSKSEASRAQDF 461
Query: 445 GLYAEGVVAHGRNMMEGSD-AFQIGHKLHSKMHKWSGAEYLDKKRISSHALIVYNQIGRM 503
GL AE + N + L + K SG ++ + +G
Sbjct: 462 GLGAES-LLDRVNRWGTDNLGGHRSRNLAEAVMKVSGLTAWTDAARAAFQFEMMTALGEA 520
Query: 504 TDTYASLKDLKADPRLDPSIKAFFKQLDDTDFTVIKRAKAMSSPDGYLYARTPSTIKNLK 563
AD L ++D ++ R K ++ D + A P
Sbjct: 521 -----------ADSDWS--------DLPESDRRILGR-KGITESDWAIIAAAP------- 553
Query: 564 DADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQQQL-ADLERKEINILKDKVSNKMH 622
R +K L+P+ + + + A+ + K + ++ + M
Sbjct: 554 -----------------RTNYGGAKMLTPDAIYAVPRNMDAEAQTKLLGMVDGETM--MA 594
Query: 623 ALVLDNVQTSVRGAMHTSLFDRQRLGLLTYKRGTRAGEALRMFQQFTTTPTGMFLNILDL 682
D ++ K GT GE R F F + P +
Sbjct: 595 VPTPDARTRAIMAG--------------GTKSGTFGGELHRSFFLFKSFPIATIMR---H 637
Query: 683 SNSAKMPKGASMALNHVWIQYSATM----ALAGIGVASIKALLRGEDPSLPEVIYDGTLA 738
A KG A + + Y+A M L G G K LL G+D P + D
Sbjct: 638 WRRAFTGKGYPGAFDR--MAYAAIMVASTTLLGAGSIQAKDLLNGKD---PRSMTDPKFW 692
Query: 739 NGALLP------YMDRLTKLVSKGDRAAIGGLLGPVPSMVTNLT----SSAVELATKDNE 788
ALL Y D L + + GPV S LT + + A E
Sbjct: 693 IEALLKGGSFGYYGDFLRNAHTGYGSDMTSYIGGPVLSYGDQLTKWVAMNPQDAAQGKAE 752
Query: 789 NSKVNATKAIRKTLPFMNMWYLKNSFDHLILNQILEELNPGYLDRQQSKKKKK-GIELFQ 847
++ + K + PF N+WY K + D LI++Q+ E +PGY +Q ++ +++ +
Sbjct: 753 SAGADLLKFATQQTPFANLWYTKAATDRLIMDQLQELSSPGYDKKQLNRSRREFNQTYWW 812
Query: 848 NMDEGLPHRLPFPFGE 863
+ G P R+P F
Sbjct: 813 SPGIGTPQRIPSLFEA 828
>gnl|CDD|165202 PHA02869, PHA02869, C4L/C10L-like gene family protein; Provisional.
Length = 418
Score = 34.7 bits (79), Expect = 0.11
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 19/98 (19%)
Query: 561 NLKDADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQQQLADLERKEI---NILKDKV 617
NL +DL D+ + + +SK PE+R EL + D + K+I N L D +
Sbjct: 32 NLGISDLNDIKNICE----------DSKIFFPEKRTELLS-IKDRKSKQIVFENSLNDDL 80
Query: 618 SNKMHALVLDNVQTSVRGAMHTSLFDRQRLGLLTYKRG 655
K+HAL+ D + T V S+ + L+ Y++G
Sbjct: 81 LKKLHALIYDELSTVV-----DSVTVENTVTLIMYEKG 113
>gnl|CDD|178882 PRK00124, PRK00124, hypothetical protein; Validated.
Length = 151
Score = 30.6 bits (70), Expect = 1.7
Identities = 16/64 (25%), Positives = 25/64 (39%), Gaps = 8/64 (12%)
Query: 539 KRAKAMSSPDGYLYARTPSTIKNLKDADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQEL 598
K A ++ P GY+Y T I L +RDL + + K + E R
Sbjct: 85 KGAIVLN-PRGYIY--TNDNIDQL--LAMRDL---MATLRRSGIRTGGPKPFTQEDRSRF 136
Query: 599 QQQL 602
+ +L
Sbjct: 137 EAEL 140
>gnl|CDD|179891 PRK04914, PRK04914, ATP-dependent helicase HepA; Validated.
Length = 956
Score = 30.6 bits (70), Expect = 1.7
Identities = 18/52 (34%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 36 LDGKGLSKAERYRLAGLKAEEDFQKELIRSVNDAIDEAYK-RHQLRSDL-DR 85
L G+ LS L L E+D + L+++ N +EA R +L S+L DR
Sbjct: 359 LAGEKLSDDALNALGELLGEQDIE-PLLQAANSDSEEAQAARQELISELLDR 409
>gnl|CDD|184419 PRK13959, PRK13959, phosphoribosylaminoimidazole-succinocarboxamide
synthase; Provisional.
Length = 341
Score = 30.0 bits (68), Expect = 2.4
Identities = 14/39 (35%), Positives = 23/39 (58%), Gaps = 4/39 (10%)
Query: 41 LSKAERYRLAGLKAEEDFQK--ELIRSVNDAI-DEAYKR 76
LS+ E +AGL + + ++ EL V++ I +EA KR
Sbjct: 184 LSRKEADEIAGL-SRAEIEELEELALKVDEIITEEAEKR 221
>gnl|CDD|183727 PRK12757, PRK12757, cell division protein FtsN; Provisional.
Length = 256
Score = 29.6 bits (67), Expect = 3.1
Identities = 12/23 (52%), Positives = 16/23 (69%), Gaps = 1/23 (4%)
Query: 586 NSKT-LSPEQRQELQQQLADLER 607
NS T L+ EQRQ L+Q AD+ +
Sbjct: 75 NSPTQLTDEQRQLLEQMQADMRQ 97
>gnl|CDD|150989 pfam10408, Ufd2P_core, Ubiquitin elongating factor core. This is
the most conserved part of the core region of Ufd2P
ubiquitin elongating factor or E4, running from helix
alpha-11 to alpha-38. It consists of 31 helices of
variable length connected by loops of variable size
forming a compact unit; the helical packing pattern of
the compact unit consists of five structural repeats
that resemble tandem Armadillo (ARM) repeats. This
domain is involved in ubiquitination as it binds Cdc48p
and escorts ubiquitinated proteins from Cdc48p to the
proteasome for degradation. The core is structurally
similar to the nuclear transporter protein
importin-alpha. The core is associated with the U-box at
the C-terminus, pfam04564, which has ligase activity.
Length = 624
Score = 29.2 bits (66), Expect = 4.9
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 582 KKLKNSKTLSPEQRQELQQQLADLERK 608
+ ++LS E+RQE + +L ERK
Sbjct: 466 QDRAEWESLSQEERQERESELHQAERK 492
>gnl|CDD|149418 pfam08349, DUF1722, Protein of unknown function (DUF1722). This
domain of unknown function is found in bacteria and
archaea and is homologous to the hypothetical protein
ybgA from E. coli.
Length = 117
Score = 29.0 bits (66), Expect = 5.4
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 587 SKTLSPEQRQELQQQLADLERKEINIL 613
K LS E++QEL + + + ++
Sbjct: 63 KKQLSSEEKQELLELIEQYREGLVPLV 89
>gnl|CDD|179046 PRK00488, pheS, phenylalanyl-tRNA synthetase subunit alpha;
Validated.
Length = 339
Score = 28.9 bits (66), Expect = 5.6
Identities = 19/75 (25%), Positives = 28/75 (37%), Gaps = 21/75 (28%)
Query: 559 IKNLKDADLRDLARMSD-------KIAYHRKK------LKNSKTLSPEQRQELQQQLADL 605
++ L + L +A SD ++ Y KK LK L PE+R+E
Sbjct: 5 LEELVEEALAAIAAASDLEALEALRVKYLGKKGELTELLKGLGKLPPEERKEAGA----- 59
Query: 606 ERKEINILKDKVSNK 620
IN LK +
Sbjct: 60 ---LINELKQAIEAA 71
>gnl|CDD|181687 PRK09192, PRK09192, acyl-CoA synthetase; Validated.
Length = 579
Score = 28.8 bits (65), Expect = 6.2
Identities = 24/57 (42%), Positives = 28/57 (49%), Gaps = 10/57 (17%)
Query: 200 MSVDKLRATKKDDFVRSMLDWLDL-SRYKDIDGTPLSRSEIASFVGEVFAERVRSTS 255
+SVD L DF R L WLDL SR + GT +S S F E+ A RV S
Sbjct: 245 LSVDYLPT---RDFARRPLQWLDLISRNR---GT-ISYSP--PFGYELCARRVNSKD 292
>gnl|CDD|178947 PRK00252, alaS, alanyl-tRNA synthetase; Reviewed.
Length = 865
Score = 28.5 bits (65), Expect = 7.4
Identities = 21/94 (22%), Positives = 42/94 (44%), Gaps = 18/94 (19%)
Query: 538 IKRAKAMSSPDGYLYARTPSTIKNLKDADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQE 597
++R +A++ Y ++A L++LA + LK + PE+ +
Sbjct: 681 VRRIEAVTGEAALEYLNE-------QEALLKELAAL----------LKAKPSELPERVEA 723
Query: 598 LQQQLADLERKEINILKDKVSNKMHALVLDNVQT 631
L ++L +LE KE+ LK K++ +L +
Sbjct: 724 LLEELKELE-KELEQLKAKLAAAAAGDLLAQAKE 756
>gnl|CDD|179924 PRK05074, PRK05074, inosine/xanthosine triphosphatase; Reviewed.
Length = 173
Score = 28.3 bits (64), Expect = 8.0
Identities = 16/46 (34%), Positives = 18/46 (39%), Gaps = 5/46 (10%)
Query: 722 RGEDPS----LPEVIYDGTLANGALLPYMDRLTKLV-SKGDRAAIG 762
RGE S LP V+ + L MDRL K AIG
Sbjct: 97 RGESRSASLPLPAVVLEALRQGEELGDVMDRLFGTDNIKQKGGAIG 142
>gnl|CDD|150853 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 28.3 bits (63), Expect = 8.8
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 564 DADLRDLARMSDKIAYHRKKLKNSKTLSPEQRQELQQQLADLERKEINILKDKVSN 619
D+ R+L + + L+ + + E + L+ QLA+LE + I + K+SN
Sbjct: 433 DSMQRELEMWRSEYRQQAQALQQERRATEEALEPLKDQLAELE-QAIKDQRSKISN 487
>gnl|CDD|180242 PRK05761, PRK05761, DNA polymerase I; Reviewed.
Length = 787
Score = 28.1 bits (63), Expect = 9.0
Identities = 17/79 (21%), Positives = 27/79 (34%), Gaps = 6/79 (7%)
Query: 726 PSLPEVIYDGTLANGALLPYMDRLTKLVSKGDRAAIGGLLGPVPSMVTNLTSSAVELATK 785
P L V YDG L + Y K+ DR G P +T+L ++ K
Sbjct: 19 PYLLSVDYDGKLGKAVVKLYDPETGKIYKWYDRT------GHKPYFLTDLDPDEIDKIPK 72
Query: 786 DNENSKVNATKAIRKTLPF 804
+ + + + K
Sbjct: 73 ILRHPSFDHLEIVEKYDGL 91
>gnl|CDD|180982 PRK07452, PRK07452, DNA polymerase III subunit delta; Validated.
Length = 326
Score = 28.3 bits (64), Expect = 9.1
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 9/51 (17%)
Query: 581 RKKLKNSKTLSPEQRQELQQQLADLE------RKEINILKDKVSNKMHALV 625
RK+++ LS +Q +L L DLE IN L+DK+ L
Sbjct: 279 RKEVQG---LSSQQLLKLLPLLLDLEASLKQGANPINALQDKLIELCQLLQ 326
>gnl|CDD|179383 PRK02201, PRK02201, putative inner membrane protein translocase
component YidC; Provisional.
Length = 357
Score = 28.1 bits (63), Expect = 9.2
Identities = 10/36 (27%), Positives = 19/36 (52%)
Query: 589 TLSPEQRQELQQQLADLERKEINILKDKVSNKMHAL 624
T + E+++ELQ + A ++ K + KDK +
Sbjct: 156 TFNQEKQEELQGKKAKIDAKYKDYKKDKQMKQRKQQ 191
>gnl|CDD|181287 PRK08203, PRK08203, hydroxydechloroatrazine ethylaminohydrolase;
Reviewed.
Length = 451
Score = 28.3 bits (64), Expect = 9.2
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 6/50 (12%)
Query: 356 LEVRQEAMLQMWEVMRYGETVENTGWANWMAGLRSAAGASMLGQHPIGAL 405
E RQ +LQ +RYG A A L GA +LG+ IG+L
Sbjct: 333 GEARQALLLQR---LRYGPDAMTAREALEWATL---GGARVLGRDDIGSL 376
Database: CddB
Posted date: Feb 4, 2011 9:54 PM
Number of letters in database: 5,994,473
Number of sequences in database: 21,608
Lambda K H
0.317 0.132 0.372
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21608
Number of Hits to DB: 14,055,137
Number of extensions: 940213
Number of successful extensions: 2382
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2369
Number of HSP's successfully gapped: 41
Length of query: 864
Length of database: 5,994,473
Length adjustment: 102
Effective length of query: 762
Effective length of database: 3,790,457
Effective search space: 2888328234
Effective search space used: 2888328234
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: 62 (27.8 bits)