RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254781213|ref|YP_003065626.1| head-to-tail joining protein,
putative [Candidatus Liberibacter asiaticus str. psy62]
(556 letters)
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 49.6 bits (118), Expect = 2e-06
Identities = 95/622 (15%), Positives = 154/622 (24%), Gaps = 275/622 (44%)
Query: 21 GELNYWMEELTGFLYP---YKNNAQLRMWD---------TTGSEACIKLSS---LLSSLI 65
G L + L P + +QL+ + T G A + ++ L+ +
Sbjct: 14 GSLEH------VLLVPTASFFIASQLQ--EQFNKILPEPTEGFAADDEPTTPAELVGKFL 65
Query: 66 ---------TPPGQKWHGLAESFSAYQ-AFLYKEDARS-------------KKVREW--- 99
+ GQ L + ++ +L D + K +E
Sbjct: 66 GYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN 125
Query: 100 ----CDQVTDTLFGFRERSRSGFVGCLQS----FYTSVVEF-GTGCFYMEADVDEKGLEE 150
F ++S S + + F G G + EE
Sbjct: 126 YITARIMAKRP---FDKKSNSALFRAVGEGNAQLVA--I-FGGQGN-------TDDYFEE 172
Query: 151 GIRYISVPLSNVYMSVNHQNVVDSVYREFTFTVDQIVSKWGDKVLSSKMKSALARNENER 210
L ++Y Y V ++ + LS L R +
Sbjct: 173 --------LRDLY----------QTYHVL---VGDLIKFSAE-TLSE-----LIRTTLDA 205
Query: 211 FTIIHAVYPKSLT--------DKKKDKGNKGFHSKF-----VSVDENRFFEEKQIATFPY 257
+ + + L DK + +S P
Sbjct: 206 EKV----FTQGLNILEWLENPSNTPDKD-------YLLSIPIS--------------CPL 240
Query: 258 IVG-----RYRVRADEIYGRSPAMEALPTIR-RLN---------------------ETVN 290
I G Y V A ++ G +P +R L E+
Sbjct: 241 I-GVIQLAHYVVTA-KLLGFTPG-----ELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 291 ELAQ----------------FGRLSLHPPTIAVSEAKQRNFDLKPGYM-NIGALSREGRS 333
+ + SL PP+I + ++ + N P M +I L++E
Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTSL-PPSI-LEDSLENNEG-VPSPMLSISNLTQEQ-- 348
Query: 334 LFQPVQFGNPLPYHEELNR-LKESIR---SLFLLDLFQVLDDKASRSAAESMEKTREKGA 389
VQ Y + N L + SL GA
Sbjct: 349 ----VQ-----DYVNKTNSHLPAGKQVEISLV-------------------------NGA 374
Query: 390 --FV--GPLIG--GLQSEFIGAMISRELDILDSQGNLPECEGADNPPVS--LLKVEYTSP 441
V GP GL A LD Q +P E S L V SP
Sbjct: 375 KNLVVSGPPQSLYGLNLTLRKAKAPSGLD----QSRIPFSERK--LKFSNRFLPV--ASP 426
Query: 442 LF--KYQQ--AESVASALQGVNTVV---ELGV-----KTGD----------PSCMDHMDT 479
F ++ + L N ++ + G +D +
Sbjct: 427 -FHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Query: 480 DRVSRFSLW--ATNTPAVLIRD 499
V W T A I D
Sbjct: 486 LPVK----WETTTQFKATHILD 503
Score = 48.4 bits (115), Expect = 5e-06
Identities = 84/497 (16%), Positives = 139/497 (27%), Gaps = 212/497 (42%)
Query: 57 LSSLLSSLITPPGQKWHGLAESFSAY-----------QAFLYKEDARSKKVREWCDQVTD 105
+ LL T + + +A + L++ +
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR-AVGEGNAQ------LV 157
Query: 106 TLFG--------FRE-RSRSGFVGCLQSFYTSVVEFGTGCFYMEADVDEKGLEEGIRYIS 156
+FG F E R L Y +V D+ I++ +
Sbjct: 158 AIFGGQGNTDDYFEELRD-------LYQTYHVLVG----------DL--------IKFSA 192
Query: 157 VPLSNVYMSVNHQNVVDSVY-REFTFTVDQIVSKW---------GDKVLSSKMKS----- 201
LS + + + V+ + + + +W D +LS + S
Sbjct: 193 ETLSE--LIRTTLD-AEKVFTQGL----N--ILEWLENPSNTPDKDYLLSIPI-SCPLIG 242
Query: 202 --ALARNENERFTII-HA--VYPKSLTDKKKDKGNKGFHSK------FVSV--DENRFFE 248
LA + + P L KG G HS+ ++ FF
Sbjct: 243 VIQLA-----HYVVTAKLLGFTPGELRSYL--KGATG-HSQGLVTAVAIAETDSWESFFV 294
Query: 249 EKQIAT---FPYIVGRYRVRADEIYGRS---PAM--------EALPT----IR-----RL 285
+ A F +I G VR E Y + P++ E +P+ I ++
Sbjct: 295 SVRKAITVLF-FI-G---VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQV 349
Query: 286 NETVNELAQFGRLSLH-PPT--IAVSEAKQRNFDLKPGYMNI---G-ALS--------RE 330
+ VN+ H P + +S L G N+ G S R+
Sbjct: 350 QDYVNKTNS------HLPAGKQVEIS--------LVNGAKNLVVSGPPQSLYGLNLTLRK 395
Query: 331 ---GRSLFQ---P-----VQFGN---PL--PYHEE---------LNRLKESIRSLFLLDL 365
L Q P ++F N P+ P+H L ++ S D+
Sbjct: 396 AKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 366 -FQVLDDKAS---RSAAES-------M--------EKTREKGA-----FVGPLIGGLQSE 401
V D R + S E T + A F GP GG
Sbjct: 456 QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDF-GP--GGASG- 511
Query: 402 FIGAMISRELDILDSQG 418
+G + R D G
Sbjct: 512 -LGVLTHR---NKDGTG 524
Score = 44.9 bits (106), Expect = 4e-05
Identities = 73/459 (15%), Positives = 126/459 (27%), Gaps = 179/459 (38%)
Query: 148 LEEG-IRY-ISVPLSNVYMSVNHQNVVDSVYR-EFTFTVDQIV-SKWGDKVLSSKMKSAL 203
L G + + + VP + + S + +F + + D ++ +
Sbjct: 11 LSHGSLEHVLLVP-TASFFIA-------SQLQEQFNKILPEPTEGFAADDEPTTPAELVG 62
Query: 204 ARNENERFT--IIHAVYPKSLTDKKKDKGNKGFHSKFVSVDENRFFEEKQI----ATFP- 256
+F + V P + D+ ++F EN + E I A
Sbjct: 63 ------KFLGYVSSLVEPSKVGQF--DQVLNLCLTEF----ENCYLEGNDIHALAAKLLQ 110
Query: 257 ----------YIVGRYRVRADEIYGRSPAMEALPTIRR--LNETVNE-----LAQFGRLS 299
++ Y + A + R L V E +A FG
Sbjct: 111 ENDTTLVKTKELIKNY-ITARIMAKRP-----FDKKSNSALFRAVGEGNAQLVAIFG--- 161
Query: 300 LHPPTIAVSEAKQRNFDLKPGYMNIGALSREGRSLF---QP-----VQFGNPLPYHEELN 351
Q N D Y E R L+ ++F EL
Sbjct: 162 -----------GQGNTD---DYF------EELRDLYQTYHVLVGDLIKFSAETLS--ELI 199
Query: 352 RLKESIRSLFL--LDLFQVLDDKASR-------SAAESMEKTREKGAFVGPLIGGLQ-SE 401
R +F L++ + L++ ++ S S PLIG +Q +
Sbjct: 200 RTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC-----------PLIGVIQLAH 248
Query: 402 FI----------GAMISRELDILD-----SQGNLPEC--EGADNPP----VSLLKVEYTS 440
++ G + S L SQG + D+ +
Sbjct: 249 YVVTAKLLGFTPGELRSY----LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITV-- 302
Query: 441 PLF----KYQQA---ESVA-SALQGVNTVVELGVKTGDPSCMDHMDTDRVSRFSLWATNT 492
LF + +A S+ S L+ +E G PS M +S
Sbjct: 303 -LFFIGVRCYEAYPNTSLPPSILE---DSLENN--EGVPSPM-------LS--------- 340
Query: 493 PAVLIRDTAEVEDIRQQREVQRRVMEEQHLQQQLQQTSQ 531
I ++ Q+ +VQ V L Q
Sbjct: 341 ----IS------NLTQE-QVQDYV---NKTNSHLPAGKQ 365
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.2 bits (85), Expect = 0.009
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 22/76 (28%)
Query: 498 RDTAEVEDIRQQREVQR----------RVME-----------EQHLQQQLQQTSQD-IGA 535
R T E E IR+ RE QR +VME E+ Q+Q +Q ++ I
Sbjct: 79 RLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINN 138
Query: 536 KAAGRAMEKKLTHDMM 551
+ A +A ++ D++
Sbjct: 139 RIADKAFYQQPDADII 154
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.8 bits (76), Expect = 0.11
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 9/36 (25%)
Query: 348 EELNRLKESIRSLFLLDLFQVLDDKASRSAAE-SME 382
+ L +L+ S++ L+ DD A A + +ME
Sbjct: 20 QALKKLQASLK------LYA--DDSAPALAIKATME 47
Score = 31.9 bits (71), Expect = 0.34
Identities = 7/21 (33%), Positives = 13/21 (61%), Gaps = 1/21 (4%)
Query: 483 SRFSLWATNT-PAVLIRDTAE 502
+ L+A ++ PA+ I+ T E
Sbjct: 27 ASLKLYADDSAPALAIKATME 47
Score = 30.0 bits (66), Expect = 1.4
Identities = 12/31 (38%), Positives = 16/31 (51%), Gaps = 6/31 (19%)
Query: 518 EEQ---HLQQQLQQTSQDIGAKA-AGRA-ME 543
E+Q LQ L+ + D A A A +A ME
Sbjct: 18 EKQALKKLQASLKLYADD-SAPALAIKATME 47
>2okj_A Glutamate decarboxylase 1; PLP-dependent decarboxylase, lyase; HET:
LLP PLZ; 2.30A {Homo sapiens} PDB: 2okk_A*
Length = 504
Score = 32.9 bits (74), Expect = 0.20
Identities = 15/79 (18%), Positives = 30/79 (37%)
Query: 401 EFIGAMISRELDILDSQGNLPECEGADNPPVSLLKVEYTSPLFKYQQAESVASALQGVNT 460
+F+ ++ L+ + + + P LL+ L ES+ L
Sbjct: 23 QFLLEVVDILLNYVRKTFDRSTKVLDFHHPHQLLEGMEGFNLELSDHPESLEQILVDCRD 82
Query: 461 VVELGVKTGDPSCMDHMDT 479
++ GV+TG P + + T
Sbjct: 83 TLKYGVRTGHPRFFNQLST 101
>2jis_A Cysteine sulfinic acid decarboxylase; pyridoxal phosphate,
alternative splicing, pyridoxal phosphate (PLP),
structural genomics consortium (SGC); HET: PLP; 1.6A
{Homo sapiens}
Length = 515
Score = 31.7 bits (71), Expect = 0.45
Identities = 12/61 (19%), Positives = 19/61 (31%), Gaps = 3/61 (4%)
Query: 422 ECEGADNPPVSLLKVEYTSPLFKY---QQAESVASALQGVNTVVELGVKTGDPSCMDHMD 478
+ + E L Q ES L+ V+ VKTG P + +
Sbjct: 57 KGTSVSQKVCEWKEPEELKQLLDLELRSQGESQKQILERCRAVIRYSVKTGHPRFFNQLF 116
Query: 479 T 479
+
Sbjct: 117 S 117
>1qre_A Carbonic anhydrase; beta-helix, lyase; 1.46A {Methanosarcina
thermophila} SCOP: b.81.1.5 PDB: 1qq0_A 1qrf_A 1qrg_A
1qrm_A 1qrl_A 1thj_A
Length = 247
Score = 29.7 bits (66), Expect = 1.6
Identities = 7/50 (14%), Positives = 16/50 (32%), Gaps = 2/50 (4%)
Query: 481 RVSRFSLWATNTPAVLIRDTAEVEDIRQQREVQRRVMEEQHLQQQLQQTS 530
+ + + A + + + E V HL + ++TS
Sbjct: 200 YIPAGMVVTSQAEADKLPEVTDDYAYSHTNEAVVYV--NVHLAEGYKETS 247
>1qkk_A DCTD, C4-dicarboxylate transport transcriptional regulatory
protein; receiver domain, 2-component signal
transduction; 1.7A {Sinorhizobium meliloti} SCOP:
c.23.1.1 PDB: 1l5z_A 1l5y_A
Length = 155
Score = 29.5 bits (66), Expect = 2.2
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 503 VEDIRQQREVQRRVMEEQHLQQQLQQTSQDIGAKAA 538
V+ R+ E +R VME + L++ + S+ + AA
Sbjct: 112 VQSARRAEEKRRLVMENRSLRRAAEAASEGLKLAAA 147
>1ed1_A GAG polyprotein, SIV MA; trimeric association, viral protein; 2.10A
{Simian immunodeficiency virus - mac} SCOP: a.61.1.1
PDB: 1ecw_A 2k4e_A 2k4h_A* 2k4i_A*
Length = 135
Score = 28.8 bits (65), Expect = 3.0
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 13/53 (24%)
Query: 491 NTPAVL--------IRDTAEVEDIRQQREVQRRVMEEQHLQQQLQQTSQDIGA 535
NT V+ ++ T E + I VQR ++ E + + +TS+
Sbjct: 80 NTVCVIWCIHAEEKVKHTEEAKQI-----VQRHLVVETGTAETMPKTSRPTAP 127
>2zxe_B Na+,K+-ATPase beta subunit; membrane protein, ION pump, ATPase, K+
binding, haloacid dehydrogenease superfamily, phosphate
analogue; HET: CLR NAG NDG; 2.40A {Squalus acanthias}
PDB: 3a3y_B* 3b8e_B*
Length = 305
Score = 28.7 bits (64), Expect = 3.8
Identities = 2/40 (5%), Positives = 11/40 (27%)
Query: 15 YLKNQRGELNYWMEELTGFLYPYKNNAQLRMWDTTGSEAC 54
+ + +++ + + Y ++Q
Sbjct: 91 FSISNPKSYESFVKSMHKLMDLYNESSQAGNSPFEDCSDT 130
>3kdp_B Sodium/potassium-transporting ATPase subunit beta-1; alpha helical,
heterotrimeric membrane protein complex, ATP- binding,
hydrolase, ION transport; HET: CLR; 3.50A {Sus scrofa}
Length = 286
Score = 28.4 bits (63), Expect = 4.0
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 15 YLKNQRGELNYWMEELTGFLYPYKNNAQ 42
+ N ++ + FL YK+ AQ
Sbjct: 73 FRPNDPQSYESYVVSIVRFLEKYKDLAQ 100
>2nac_A NAD-dependent formate dehydrogenase;
oxidoreductase(aldehyde(D),NAD+(A)); 1.80A {Pseudomonas
SP} SCOP: c.2.1.4 c.23.12.1 PDB: 2nad_A* 2go1_A 2gug_A*
2gsd_A*
Length = 393
Score = 28.3 bits (62), Expect = 4.3
Identities = 9/89 (10%), Positives = 21/89 (23%), Gaps = 6/89 (6%)
Query: 474 MDHMDTDRVSRFSLWATNTPAVLIRDTAE------VEDIRQQREVQRRVMEEQHLQQQLQ 527
DH+D ++ AE + +R +
Sbjct: 124 SDHVDLQSAIDRNVTVAEVTYCNSISVAEHVVMMILSLVRNYLPSHEWARKGGWNIADCV 183
Query: 528 QTSQDIGAKAAGRAMEKKLTHDMMENSYG 556
+ D+ A G ++ ++
Sbjct: 184 SHAYDLEAMHVGTVAAGRIGLAVLRRLAP 212
>1vqz_A Lipoate-protein ligase, putative; NP_345629.1, structural genomics,
joint center for structural genomics, JCSG; HET: MSE;
1.99A {Streptococcus pneumoniae TIGR4} SCOP: d.224.1.3
d.104.1.3
Length = 341
Score = 27.7 bits (61), Expect = 7.8
Identities = 23/104 (22%), Positives = 36/104 (34%), Gaps = 2/104 (1%)
Query: 174 SVYREFTFTVDQIVSKWGD--KVLSSKMKSALARNENERFTIIHAVYPKSLTDKKKDKGN 231
+ D +S + KV K +S ++ R T I PK +T +K
Sbjct: 154 RIMHHGCLLFDVDLSVLANALKVSKDKFESKGVKSVRARVTNIINELPKKITVEKFRDLL 213
Query: 232 KGFHSKFVSVDENRFFEEKQIATFPYIVGRYRVRADEIYGRSPA 275
+ K F E+++A I D YG+SP
Sbjct: 214 LEYMKKEYPEMTEYVFSEEELAEINRIKDTKFGTWDWNYGKSPE 257
>3ixz_B Potassium-transporting ATPase subunit beta; ION pump, H+,
K+-ATPase, P-type ATPase, membrane protein, hydrolase,
aluminium fluoride, ATP-binding; 6.50A {Sus scrofa}
Length = 290
Score = 27.6 bits (61), Expect = 8.5
Identities = 7/33 (21%), Positives = 9/33 (27%)
Query: 15 YLKNQRGELNYWMEELTGFLYPYKNNAQLRMWD 47
Y + L FL Y AQ +
Sbjct: 98 YNVSDSTTWAGLAHTLHRFLAGYSPAAQEGSIN 130
>3cqb_A Probable protease HTPX homolog; heat shock protein HTPX domain,
PSI-2, protein structure initiative, structural
genomics; HET: MSE; 1.86A {Vibrio parahaemolyticus rimd
2210633}
Length = 107
Score = 27.5 bits (61), Expect = 9.1
Identities = 11/35 (31%), Positives = 17/35 (48%), Gaps = 2/35 (5%)
Query: 280 PTIRRLNETVNELAQFGRLSLHPPTIAVSEAKQRN 314
T L ETV AQ + + PT+A+ ++ N
Sbjct: 23 ETEHWLLETVGRQAQ--QAGIGMPTVAIYDSADIN 55
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.317 0.133 0.384
Gapped
Lambda K H
0.267 0.0450 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 4,584,418
Number of extensions: 211143
Number of successful extensions: 677
Number of sequences better than 10.0: 1
Number of HSP's gapped: 672
Number of HSP's successfully gapped: 31
Length of query: 556
Length of database: 5,693,230
Length adjustment: 97
Effective length of query: 459
Effective length of database: 3,341,562
Effective search space: 1533776958
Effective search space used: 1533776958
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: 59 (27.2 bits)