RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780897|ref|YP_003065310.1| trigger factor [Candidatus
Liberibacter asiaticus str. psy62]
(473 letters)
>1w26_A Trigger factor, TF; chaperone, protein folding, ribosome associated
protein, nascent chain, cell division, isomerase; 2.7A
{Escherichia coli} SCOP: a.223.1.1 d.241.2.1 d.26.1.1
PDB: 2vrh_A 1w2b_5
Length = 432
Score = 202 bits (515), Expect = 1e-52
Identities = 91/445 (20%), Positives = 211/445 (47%), Gaps = 18/445 (4%)
Query: 1 MQVIEKFSEGLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGFRPGKVPLSHIKSLYGK 60
MQV + ++GL R + + I ++ + + + ++ K I GFR GKVP++ + YG
Sbjct: 1 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKVRIDGFRKGKVPMNIVAQRYGA 60
Query: 61 SILSETIDEIIKEIVPEILSKRDERAAMRPSITINEGESDITSGLIEGTVDLKLRLSYDI 120
S+ + + +++ + + K A P+ E + D + +++
Sbjct: 61 SVRQDVLGDLMSRNFIDAIIKEKINPAGAPTYVPGEYKLGE---------DFTYSVEFEV 111
Query: 121 LPQIEISSFDDLQVTQDICEVDEKEIDRQMAEIAKNNVAFEVKETESEIGDKVTVDYTVS 180
P++E+ + ++V + I EV + ++D + + K ++ K+ E D+VT+D+T S
Sbjct: 112 YPEVELQGLEAIEVEKPIVEVTDADVDGMLDTLRKQQATWKEKDGAVEAEDRVTIDFTGS 171
Query: 181 VDNVILEDQSKKNVQFIVGSADLFSETTEILVGLKTGDQKEIERFFPEDHSIKDLAGKKV 240
VD E + +G + + + G K G++ I+ FPE++ ++L GK
Sbjct: 172 VDGEEFEGGKASDFVLAMGQGRMIPGFEDGIKGHKAGEEFTIDVTFPEEYHAENLKGKAA 231
Query: 241 RLNFSIKEVFSPLPVVVNNDLAVRLGFE--SESAMRGLCSQKIKQHSEFLVRQKVKRQIL 298
+ ++K+V + + R G E S +R + +++ + +R +VK Q +
Sbjct: 232 KFAINLKKVEERELPELTAEFIKRFGVEDGSVEGLRAEVRKNMERELKSAIRNRVKSQAI 291
Query: 299 DYISNKYTFDVPESLVENEYNGILQKVRFEMSSANQKSQNVDSIDEEDLQYYHMLAKRRV 358
+ + DVP +L+++E + + ++ +++ E + + AKRRV
Sbjct: 292 EGLVKANDIDVPAALIDSEIDVLRRQAAQRFGGNEKQAL------ELPRELFEEQAKRRV 345
Query: 359 LTGIVLGTIGEKNNIEVTEEEMQSALYQQLGRFPGHEKKMLDHFQKYPNALAELRAPIFE 418
+ G++LG + N ++ EE ++ L +++ K++++ + K + +R E
Sbjct: 346 VVGLLLGEVIRTNELKADEERVK-GLIEEMASAYEDPKEVIEFYSKNKELMDNMRNVALE 404
Query: 419 DKVIDHILKSVQIVDRKVTFDQLFD 443
++ ++ +L ++ +++ TF++L +
Sbjct: 405 EQAVEAVLAKAKVTEKETTFNELMN 429
>1t11_A Trigger factor, TF; helix-turn-helix, four-helix-bundle, ppiase,
chaperone; 2.50A {Vibrio cholerae} SCOP: a.223.1.1
d.241.2.1 d.26.1.1 PDB: 1l1p_A
Length = 392
Score = 175 bits (444), Expect = 2e-44
Identities = 82/405 (20%), Positives = 193/405 (47%), Gaps = 18/405 (4%)
Query: 1 MQVIEKFSEGLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGFRPGKVPLSHIKSLYGK 60
MQV + EGL+R L++ +P+ + D+ + +I GFR GKVP+ + +YGK
Sbjct: 4 MQVTVETLEGLQRRLNITVPAANIEDAVAAELRNIAKNRRFDGFRKGKVPMKMVAKMYGK 63
Query: 61 SILSETIDEIIKEIVPEILSKRDERAAMRPSITINEGESDITSGLIEGTVDLKLRLSYDI 120
++ + + E+++ E + K A P+ E DL ++++
Sbjct: 64 AVRQDVLGEVMQRHFIEAIVKEKINPAGAPTFAPVEIGEGK---------DLVFTATFEV 114
Query: 121 LPQIEISSFDDLQVTQDICEVDEKEIDRQMAEIAKNNVAFEVKETESEIGDKVTVDYTVS 180
P++E+ +++ V + EV + ++ + + K ++ + +E G +V++D+ S
Sbjct: 115 YPEVELKGLENIAVEKPAAEVTDADVAEMLETLRKQQATWKEVDEAAENGKRVSIDFVGS 174
Query: 181 VDNVILEDQSKKNVQFIVGSADLFSETTEILVGLKTGDQKEIERFFPEDHSIKDLAGKKV 240
+D V E +N +G+ + + +VG G + I+ FPED+ ++L GK
Sbjct: 175 IDGVEFEGGKAENFPLEMGAGRMIPGFEDGIVGKTKGMEFVIDVTFPEDYHAENLKGKAA 234
Query: 241 RLNFSIKEVFSPLPVVVNNDLAVRLGFE--SESAMRGLCSQKIKQHSEFLVRQKVKRQIL 298
+ + +V + +N++ R G A++ + +++ + ++ ++K Q +
Sbjct: 235 KFAIKVNKVEARELPELNDEFVARFGVAEGGVDALKAEVRKNMERELKQAIKARIKEQAI 294
Query: 299 DYISNKYTFDVPESLVENEYNGILQKVRFEMSSANQKSQNVDSIDEEDLQYYHMLAKRRV 358
+ + + VP +L++ E N + Q+ A + NV++ + + + AKRRV
Sbjct: 295 EGLVKENEIQVPSALIDQEINVLRQQA------AQRFGGNVEAAAQLPRELFEEQAKRRV 348
Query: 359 LTGIVLGTIGEKNNIEVTEEEMQSALYQQLGRFPGHEKKMLDHFQ 403
+ G++LG + + ++ EE++++ + + + +++ +++
Sbjct: 349 VVGLLLGEVIRTHELKADEEKVKALITEMATAYED-PSEVVSYYE 392
>3gty_X Trigger factor, TF; chaperone-client complex, cell cycle, cell
division, chaperone, isomerase, rotamase,
ribonucleoprotein; 3.40A {Thermotoga maritima} PDB:
3gu0_A
Length = 433
Score = 171 bits (435), Expect = 2e-43
Identities = 80/436 (18%), Positives = 190/436 (43%), Gaps = 30/436 (6%)
Query: 1 MQVIEKFSEGLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGFRPGKVPLSHIKSLYGK 60
M+V E + + L+ + + + + ++ + + + I GFR G++P + +K G+
Sbjct: 1 MEVKELERDKNRVVLEYVFGAEEIAQAEDKAVRYLNQRVEIPGFRKGRIPKNVLKMKLGE 60
Query: 61 SILSETIDEIIKEIVPEILSKRDERAAMRPSITINEGESDITSGLIEGTVDLKLRLSYDI 120
T+D ++ +++P+ L +D + + P +T E + V ++ +
Sbjct: 61 EFQEYTLDFLM-DLIPDTL--KDRKLILSPIVTERELKD----------VTARVVVEVHE 107
Query: 121 LPQIEISSFDDLQVTQDICE-VDEKEIDRQMAEIAKNNVAFEVKETESEIGDKVTVDYTV 179
P++ I ++V + E V EK ++R++ ++ +++ E KE +E GD V V+ V
Sbjct: 108 EPEVRIGDISKIEVEKVDEEKVLEKYVERRIEDLRESHALLEPKEGPAEAGDLVRVNMEV 167
Query: 180 SVDNVILEDQSKKNVQFIVGSADLFSETTEILVGLKTGDQKEIERFFPEDHSIKDLAGKK 239
N + + + ++++ D + LVG K GD EIER + GKK
Sbjct: 168 --YNEEGKKLTSREYEYVISE-DEDRPFVKDLVGKKKGDVVEIEREYE---------GKK 215
Query: 240 VRLNFSIKEVFSPLPVVVNNDLAVRLGFESE--SAMRGLCSQKIKQHSEFLVRQKVKRQI 297
++EV+ + ++LA + E E ++ ++ K+ + +++ ++ Q+
Sbjct: 216 YTYKLEVEEVYKRTLPEIGDELAKSVNNEFETLEQLKESLKKEGKEIYDVEMKESMREQL 275
Query: 298 LDYISNKYTFDVPESLVENEYNGILQKVRFEMSSANQKSQNVDSIDEEDLQYYHMLAKRR 357
L+ + ++ + +E N + R + ++ + +E+ +
Sbjct: 276 LEKLPEIVEIEISDRTLEILVNEAIN--RLKREGRYEQIVSSYESEEKFREELKERILDD 333
Query: 358 VLTGIVLGTIGEKNNIEVTEEEMQSALYQQLGRFPGHEKKMLDHFQKYPNALAELRAPIF 417
+ V+ + ++ I V +EE++ + + + + + ELR I
Sbjct: 334 IKRDRVIEVLAQEKGISVNDEELEKEAEELAPFWGISPDRAKSLVKARQDLREELRWAIL 393
Query: 418 EDKVIDHILKSVQIVD 433
+ KV+D +L+ V++
Sbjct: 394 KRKVLDLLLQEVKVKV 409
>1zxj_A MPN555, hypothetical protein Mg377 homolog; mostly alpha helical
protein, TRI-lobal structure, structural genomics, PSI;
2.80A {Mycoplasma pneumoniae}
Length = 218
Score = 96.1 bits (239), Expect = 1e-20
Identities = 20/221 (9%), Positives = 73/221 (33%), Gaps = 30/221 (13%)
Query: 217 GDQKEIERFFPEDHSIKDLAGKKVRLNFSIKEVFSPLPVVVNNDLAVRLG-FESESAMRG 275
D E + + H +L +K + + V A + +
Sbjct: 12 YDIPTTENLYFQGHMATNLKSTAK----LVKPIQYDEVIEVERIFADPAFIEQHRQRILA 67
Query: 276 LCSQKIK-----QHSEFLVRQKVKRQILDYISNKYTFDVPESLVENEYNGILQKVRFEMS 330
+ + + +++ + ++ I + F++ E+ ++N G+ + V
Sbjct: 68 SFKDAKESALYHELTHIVIKDNLFSCAMNAIVGYFEFNIDEAELKNVMEGLKRDVIQGAE 127
Query: 331 SANQKSQNVDSIDEEDLQYYHMLAKRRVLTGIVLGTIGEKNNIEVTEEEMQSALYQQLGR 390
++ A++ + +V + ++ +E+T+E +++ +
Sbjct: 128 DNTVQAI----------------AEKIIKKALVFNHLQKEWKVEITDEVVKNVISL---- 167
Query: 391 FPGHEKKMLDHFQKYPNALAELRAPIFEDKVIDHILKSVQI 431
+ + + + +R + E++++ + +
Sbjct: 168 YYEKTNQSVREYLDDKQKFEGVRTALLEERMVLETINHFKF 208
>2nsa_A Trigger factor, TF; chaperone; 1.70A {Thermotoga maritima}
Length = 170
Score = 92.3 bits (229), Expect = 2e-19
Identities = 23/164 (14%), Positives = 68/164 (41%), Gaps = 2/164 (1%)
Query: 267 FESESAMRGLCSQKIKQHSEFLVRQKVKRQILDYISNKYTFDVPESLVENEYNGILQKVR 326
FE+ ++ ++ K+ + +++ ++ Q+L+ + ++ + +E N + R
Sbjct: 3 FETLEQLKESLKKEGKEIYDVEMKESMREQLLEKLPEIVEIEISDRTLEILVNEAIN--R 60
Query: 327 FEMSSANQKSQNVDSIDEEDLQYYHMLAKRRVLTGIVLGTIGEKNNIEVTEEEMQSALYQ 386
+ ++ + +E+ + + V+ + ++ I V +EE++ +
Sbjct: 61 LKREGRYEQIVSSYESEEKFREELKERILDDIKRDRVIEVLAQEKGISVNDEELEKEAEE 120
Query: 387 QLGRFPGHEKKMLDHFQKYPNALAELRAPIFEDKVIDHILKSVQ 430
+ + + + ELR I + KV+D +L+ V+
Sbjct: 121 LAPFWGISPDRAKSLVKARQDLREELRWAILKRKVLDLLLQEVE 164
>1p9y_A Trigger factor, TF; alpha-beta protein, isomerase; 2.15A
{Escherichia coli} SCOP: d.241.2.1 PDB: 1oms_A*
Length = 121
Score = 84.2 bits (208), Expect = 6e-17
Identities = 25/126 (19%), Positives = 57/126 (45%), Gaps = 9/126 (7%)
Query: 1 MQVIEKFSEGLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGFRPGKVPLSHIKSLYGK 60
MQV + ++GL R + + I ++ + + + ++ K I G R GKVP++ + YG
Sbjct: 4 MQVSVETTQGLGRRVTITIAADSIETAVKSELVNVAKKVRIDGLRKGKVPMNIVAQRYGA 63
Query: 61 SILSETIDEIIKEIVPEILSKRDERAAMRPSITINEGESDITSGLIEGTVDLKLRLSYDI 120
S+ + + +++ + + K A P+ E + D + +++
Sbjct: 64 SVRQDVLGDLMSRNFIDAIIKEKINPAGAPTYVPGEYKLG---------EDFTYSVEFEV 114
Query: 121 LPQIEI 126
P++E+
Sbjct: 115 YPEVEL 120
>1hxv_A Trigger factor; FKBP fold, ppiase, chaperone; NMR {Mycoplasma
genitalium} SCOP: d.26.1.1
Length = 113
Score = 69.9 bits (171), Expect = 1e-12
Identities = 26/99 (26%), Positives = 45/99 (45%), Gaps = 1/99 (1%)
Query: 152 EIAKNNVAF-EVKETESEIGDKVTVDYTVSVDNVILEDQSKKNVQFIVGSADLFSETTEI 210
++AK +V + + GD +D+T VDN L S +N + +GS
Sbjct: 14 KLAKTKSTMVDVSDKKLANGDIAIIDFTGIVDNKKLASASAQNYELTIGSNSFIKGFETG 73
Query: 211 LVGLKTGDQKEIERFFPEDHSIKDLAGKKVRLNFSIKEV 249
L+ +K +K + FP D+ +K+L K V +K +
Sbjct: 74 LIAMKVNQKKTLALTFPSDYHVKELQSKPVTFEVVLKAI 112
>2nsc_A Trigger factor, TF; chaperone; 2.20A {Thermotoga maritima} PDB:
2nsb_A
Length = 109
Score = 68.7 bits (168), Expect = 2e-12
Identities = 19/100 (19%), Positives = 46/100 (46%), Gaps = 3/100 (3%)
Query: 1 MQVIEKFSEGLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGFRPGKVPLSHIKSLYGK 60
M+V E + + L+ + + + + ++ + + + I GFR G++P + +K G+
Sbjct: 1 MEVKELERDKNRVVLEYVFGAEEIAQAEDKAVRYLNQRVEIPGFRKGRIPKNVLKMKLGE 60
Query: 61 SILSETIDEIIKEIVPEILSKRDERAAMRPSITINEGESD 100
T+D ++ I + +D + + P +T E +
Sbjct: 61 EFQEYTLDFLMDLIPDTL---KDRKLILSPIVTERELKDV 97
>2d3o_1 Trigger factor, TF; ribosome, nascent chain, protein folding, SRP;
3.35A {Deinococcus radiodurans} PDB: 2aar_7
Length = 112
Score = 67.5 bits (165), Expect = 6e-12
Identities = 22/123 (17%), Positives = 48/123 (39%), Gaps = 12/123 (9%)
Query: 1 MQVIEKFSEGLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGFRPGKVPLSHIKSLYGK 60
M + EG K E V +P+ + ++++ + + GFRPGK P I++ GK
Sbjct: 1 MAELIS-KEGNKVEFKVSVPAAEVNRAYDQVWAGLARDVRVPGFRPGKAPRKVIENRVGK 59
Query: 61 S-ILSETIDEIIKEIVPEILSKRDERAAMRPSITINEGESDITSGLIEGTVDLKLRLSYD 119
+ S+ D +++ + L + ++ + +S + + +
Sbjct: 60 GYVESQVRDRLLETHYSQGLRELGLNLV-DATVDPQDVQSG---------QAFEFTVKGE 109
Query: 120 ILP 122
P
Sbjct: 110 TYP 112
>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 = 43.0 bits (101), Expect = 1e-04
Identities = 49/186 (26%), Positives = 73/186 (39%), Gaps = 55/186 (29%)
Query: 229 DHSIKDLAGKKVRLNFSIKEVFSPLPVVVNN--DLAVRLGFESESAMRGLCSQKIKQHSE 286
D+ KD G FS L +V+NN +L + G E +R S I E
Sbjct: 1650 DNHFKDTYG------------FSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI---FE 1694
Query: 287 FLVRQKVK-RQILDYI---SNKYTFDVPESLVENEYNGILQKVRFEMSSANQKSQNVDSI 342
+V K+K +I I S YTF +E G+L SA Q +Q ++
Sbjct: 1695 TIVDGKLKTEKIFKEINEHSTSYTF-------RSE-KGLL--------SATQFTQPALTL 1738
Query: 343 DE----EDLQYYHMLAKRRVLTGIVLG------TIGEKNNIEVTEE-------EMQSALY 385
E EDL+ ++ G LG ++ + +IE E MQ A+
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVP 1798
Query: 386 Q-QLGR 390
+ +LGR
Sbjct: 1799 RDELGR 1804
Score = 35.7 bits (82), Expect = 0.021
Identities = 28/131 (21%), Positives = 44/131 (33%), Gaps = 44/131 (33%)
Query: 7 FSEGLKRELDVIIPSNR------------LTDSFNERI-EDIRSKANIKGFRPG--KVPL 51
FSE R+L SNR L + ++ I +D+ N+ F ++P+
Sbjct: 409 FSE---RKLKF---SNRFLPVASPFHSHLLVPA-SDLINKDLVKN-NVS-FNAKDIQIPV 459
Query: 52 SHIKS---L--YGKSILSETIDEIIKEIVPEILSKRDERAAMRPSIT-INE----GESDI 101
L SI +D II+ V + T I + G S +
Sbjct: 460 YDTFDGSDLRVLSGSISERIVDCIIRLPV-------KWETTTQFKATHILDFGPGGASGL 512
Query: 102 ---TSGLIEGT 109
T +GT
Sbjct: 513 GVLTHRNKDGT 523
Score = 35.3 bits (81), Expect = 0.027
Identities = 30/231 (12%), Positives = 70/231 (30%), Gaps = 89/231 (38%)
Query: 297 ILDYISNKYTFDVPESL------VENEYNGILQKV------------------RFE---M 329
L + S ++ VP + ++ ++N IL + +F
Sbjct: 10 TLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVS 69
Query: 330 SSANQKSQNV-DSIDEEDLQYY----------HMLAKRRVLTGIVLGTIGEKNNI----- 373
S D + L + H LA + L T+ + +
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK--LLQENDTTLVKTKELIKNYI 127
Query: 374 ---EVTEEEM----QSALYQQLGRFPGHEKKML---------DHFQKYPNALAELR---- 413
+ + SAL++ +G G+ + + D+F+ ELR
Sbjct: 128 TARIMAKRPFDKKSNSALFRAVGE--GNAQLVAIFGGQGNTDDYFE-------ELRDLYQ 178
Query: 414 --APIFED------KVIDHILKSVQIVDRKVTFDQLFD-----NSSESSPE 451
+ D + + ++++ ++ F Q + + ++P+
Sbjct: 179 TYHVLVGDLIKFSAETLSELIRTTLDAEK--VFTQGLNILEWLENPSNTPD 227
Score = 33.0 bits (75), Expect = 0.14
Identities = 55/276 (19%), Positives = 99/276 (35%), Gaps = 96/276 (34%)
Query: 33 EDIRSKANIKGFRPGKVPLSHIKSLYGKSILS---------------------------- 64
+D+ ++A+ +H K YG SIL
Sbjct: 1643 QDVWNRAD-----------NHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAM 1691
Query: 65 --ETI-------DEIIKEIVPEILSK--RDERAAM------RPSITINEGES--DITS-G 104
ETI ++I KEI S R E+ + +P++T+ E + D+ S G
Sbjct: 1692 IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKG 1751
Query: 105 LIEGTVDLKLRLSYDILPQIEISSFDDLQVTQDICE------------VDEKEIDRQ--- 149
LI + + ++S D+ + + E V E+ R
Sbjct: 1752 LIPADATFA---GHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYG 1808
Query: 150 MAEIAKNNVA--FEVKETESEIGDKV--TVDYTVSVDNVILEDQSKKNVQFIVGSADL-- 203
M I VA F +E + ++V + V + N +E+Q Q+ V + DL
Sbjct: 1809 MIAINPGRVAASFS-QEALQYVVERVGKRTGWLVEIVNYNVENQ-----QY-VAAGDLRA 1861
Query: 204 FSETTEIL--VGLKTGDQKEIERFFPEDHSIKDLAG 237
T +L + L+ D E+++ S++++ G
Sbjct: 1862 LDTVTNVLNFIKLQKIDIIELQKSL----SLEEVEG 1893
>3jxv_A 70 kDa peptidyl-prolyl isomerase; FKBP- binding domain
five-stranded anti-parallel beta-sheet alpha-helix
crossing THis sheet; 2.08A {Triticum aestivum} PDB:
3jym_A
Length = 356
Score = 29.0 bits (64), Expect = 2.1
Identities = 13/58 (22%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 168 EIGDKVTVDYTVSVDNVILEDQSKKN---VQFIVGSADLFSETTEILVGLKTGDQKEI 222
E+GD+V V YT ++ + D S+ +F +G + + + +K G+
Sbjct: 28 EVGDEVEVHYTGTLLDGKKFDSSRDRDDTFKFKLGQGQVIKGWDQGIKTMKKGENALF 85
>2kfw_A FKBP-type peptidyl-prolyl CIS-trans isomerase SLYD; protein,
cobalt, copper, cytoplasm, metal- binding, nickel,
rotamase, zinc; NMR {Escherichia coli}
Length = 196
Score = 28.5 bits (63), Expect = 3.1
Identities = 13/55 (23%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 170 GDKVTVDYTVSVDNVILEDQSKKN--VQFIVGSADLFSETTEILVGLKTGDQKEI 222
V++ Y V ++ +L D+S + + ++ G L S L G + GD+ ++
Sbjct: 6 DLVVSLAYQVRTEDGVLVDESPVSAPLDYLHGHGSLISGLETALEGHEVGDKFDV 60
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, ATP-binding, cytoplasm, hydrolase,
membrane; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 28.5 bits (63), Expect = 3.3
Identities = 36/141 (25%), Positives = 52/141 (36%), Gaps = 54/141 (38%)
Query: 136 QDICEVDEKEIDRQMAEIAKN-------NVAFEVKETESE---------IGDKVTV---- 175
Q IC +E+ RQ+ ++ AF +K++ + IG TV
Sbjct: 191 QAICLAPSRELARQIMDVVTEMGKYTEVKTAFGIKDSVPKGAKIDAQIVIGTPGTVMDLM 250
Query: 176 --------DYTVSV----DNVI----LEDQS-------KKNVQFIVGSADLFSETTEILV 212
D V V DN++ L DQS +N Q ++ SA FSE E
Sbjct: 251 KRRQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSAT-FSERVE--- 306
Query: 213 GLKTGDQKEIERFFPEDHSIK 233
K ERF P + I+
Sbjct: 307 -------KYAERFAPNANEIR 320
>2i99_A MU-crystallin homolog; thyroid hormine binding protein,
oxidoreductase; HET: NDP; 2.60A {Homo sapiens}
Length = 312
Score = 28.3 bits (62), Expect = 3.6
Identities = 13/66 (19%), Positives = 33/66 (50%), Gaps = 2/66 (3%)
Query: 171 DKVTVDYTVSVDNVILEDQSKKNVQFIVGSADLFSETTEILVGLKTGDQKEIERFFPEDH 230
D++ + + VD+ E K++ ++ A++F+E E++ G+K ++ F
Sbjct: 237 DELMKEAVLYVDSQ--EAALKESGDVLLSGAEIFAELGEVIKGVKPAHCEKTTVFKSLGM 294
Query: 231 SIKDLA 236
+++D
Sbjct: 295 AVEDTV 300
>1ix5_A FKBP; ppiase, isomerase; NMR
{Methanothermococcusthermolithotrophicus} SCOP: d.26.1.1
Length = 151
Score = 28.5 bits (63), Expect = 3.7
Identities = 16/71 (22%), Positives = 31/71 (43%), Gaps = 16/71 (22%)
Query: 168 EIGDKVTVDYTVSVDNVILEDQSKKNV----------------QFIVGSADLFSETTEIL 211
+ G K+ VDY +++ + D S + V +F+VG L E +
Sbjct: 3 DKGVKIKVDYIGKLESGDVFDTSIEEVAKEAGIYAPDREYEPLEFVVGEGQLIQGFEEAV 62
Query: 212 VGLKTGDQKEI 222
+ ++ GD+K +
Sbjct: 63 LDMEVGDEKTV 73
>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 = 28.0 bits (61), Expect = 5.0
Identities = 7/29 (24%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 187 EDQSKKNVQFIVGSADLFSETTEILVGLK 215
E Q+ K +Q S L+++ + + +K
Sbjct: 18 EKQALKKLQ---ASLKLYADDSAPALAIK 43
>3e0j_A DNA polymerase subunit delta-2; DNA polymerase delta, P66 subunit,
P50 subunit, human, DNA replication, DNA-directed DNA
polymerase; HET: DNA; 3.00A {Homo sapiens}
Length = 476
Score = 28.0 bits (62), Expect = 5.2
Identities = 19/87 (21%), Positives = 40/87 (45%), Gaps = 3/87 (3%)
Query: 155 KNNVAFEVKETESEIGDKVTVDYTVSVDNVILEDQSKKNVQFIVGSADLFSETTEILVGL 214
+ ++ EV E + + Y D ++LED+ ++ + G+ D+ T ++ +
Sbjct: 111 QPSILREVSEEHNLLPQPPRSKYIHPDDELVLEDELQRIK--LKGTIDVSKLVTGTVLAV 168
Query: 215 KTGDQKEIERFFPEDHSIKDLAGKKVR 241
G ++ +F ED+ DLA +K
Sbjct: 169 F-GSVRDDGKFLVEDYCFADLAPQKPA 194
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 27.8 bits (61), Expect = 5.2
Identities = 18/157 (11%), Positives = 48/157 (30%), Gaps = 5/157 (3%)
Query: 138 ICEVDEKEIDRQMAEIAKNNVAFEVKETESEIGDKVTVDYTVSVDNVILEDQSKKNVQFI 197
I + + +A+ + + T S + + Y + ++E+ F
Sbjct: 1121 IYLMPWIAANMDLAKNVQTQI---EHTTLSTVTSATEIHYDPDPQDTVIEEDKDFVEAFF 1177
Query: 198 VGSADLFSETTEILVGLKTGDQKEIERFFPEDHSIKDLAGKKVRLNFSIKEVFSPLPVVV 257
+ E + + + + S+ D+AGK +++F+
Sbjct: 1178 AIPDEEVEENLYKQSPWLLRLELDRAKMLDKKLSMSDVAGKIAESFE--RDLFTIWSEDN 1235
Query: 258 NNDLAVRLGFESESAMRGLCSQKIKQHSEFLVRQKVK 294
+ L +R + + + + FL +
Sbjct: 1236 ADKLIIRCRIIRDDDRKAEDDDNMIEEDVFLKTIEGH 1272
>3ler_A DHDPS, dihydrodipicolinate synthase; TIM barrel, amino-acid
biosynthesis, cytoplasm, diaminopimelate biosynthesis,
lyase; HET: MCL MSE; 1.84A {Campylobacter jejuni subsp}
Length = 301
Score = 27.8 bits (61), Expect = 5.3
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 10 GLKRELDVIIPSNRLTDSFNERIEDIRSKANIKGF 44
GL L+ +P + +IE++ K IKGF
Sbjct: 267 GLIESLEFRLPLCSPSKENFAKIEEVMKKYKIKGF 301
>3cgm_A SLYD, peptidyl-prolyl CIS-trans isomerase; chaperone function, two
domain protein, rotamase; 2.41A {Thermus thermophilus}
PDB: 3cgn_A
Length = 158
Score = 27.8 bits (61), Expect = 5.4
Identities = 10/36 (27%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 170 GDKVTVDYTVSVDNVILEDQSKKNVQFIVGSADLFS 205
VT+ YT+ V+ +L DQ + + ++ G +L
Sbjct: 6 DKVVTIRYTLQVEGEVL-DQGE--LSYLHGHRNLIP 38
>1fd9_A Protein (macrophage infectivity potentiator protein); FKBP domain,
long alpha helix, dimerisation VIA helical interactions,
isomerase; 2.41A {Legionella pneumophila} SCOP: d.26.1.1
PDB: 2uz5_A 2vcd_A*
Length = 213
Score = 27.6 bits (61), Expect = 6.2
Identities = 17/97 (17%), Positives = 30/97 (30%), Gaps = 19/97 (19%)
Query: 142 DEKEIDRQMAEIAKNNVAFEVKETESEI---------------GDKVTVDYTVSV-DNVI 185
++ + + + E V S + D VTV+YT + D +
Sbjct: 84 NKVKGEAFLTENKNK---PGVVVLPSGLQYKVINSGNGVKPGKSDTVTVEYTGRLIDGTV 140
Query: 186 LEDQSKKNVQFIVGSADLFSETTEILVGLKTGDQKEI 222
+ K + + TE L + G EI
Sbjct: 141 FDSTEKTGKPATFQVSQVIPGWTEALQLMPAGSTWEI 177
>1q1c_A FK506-binding protein 4; rotamase, TPR repeat, nuclear protein,
phosphorylation, isomerase; 1.90A {Homo sapiens} SCOP:
d.26.1.1 d.26.1.1 PDB: 1n1a_A 1rot_A 1rou_A
Length = 280
Score = 27.0 bits (59), Expect = 9.8
Identities = 13/56 (23%), Positives = 22/56 (39%), Gaps = 3/56 (5%)
Query: 170 GDKVTVDYTVSVDNVILEDQSKKN---VQFIVGSADLFSETTEILVGLKTGDQKEI 222
GD+V V YT + + D S F +G ++ + +K G+ I
Sbjct: 70 GDRVFVHYTGWLLDGTKFDSSLDRKDKFSFDLGKGEVIKAWDIAIATMKVGEVCHI 125
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
0.314 0.133 0.354
Gapped
Lambda K H
0.267 0.0495 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,940,332
Number of extensions: 190655
Number of successful extensions: 562
Number of sequences better than 10.0: 1
Number of HSP's gapped: 546
Number of HSP's successfully gapped: 47
Length of query: 473
Length of database: 5,693,230
Length adjustment: 96
Effective length of query: 377
Effective length of database: 3,365,806
Effective search space: 1268908862
Effective search space used: 1268908862
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 58 (26.7 bits)