RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy18093
(411 letters)
>2nyd_A UPF0135 protein SA1388; hypothetical protein SA1388,
selenomethionine SAD, unknown F; 2.00A {Staphylococcus
aureus subsp} PDB: 3lnl_A*
Length = 370
Score = 125 bits (315), Expect = 1e-32
Identities = 59/334 (17%), Positives = 105/334 (31%), Gaps = 52/334 (15%)
Query: 87 NDKWKERVVSTCLAHNIAVYSPHTTWDAIQGGINDWLASIYNISEYYPLVPSKPEKFNSM 146
++ + H+I + + HT D G+N LA + + + + +
Sbjct: 80 KANGYGLIIRKLIQHDINLIAMHTNLDVNPYGVNMMLAKVMGLKNISIINNQQDVYYKVQ 139
Query: 147 IAISHKIFRLLLRPLFNNNLNLEKNETSIKFPF--FAVYSPHTTWDAIQGGINDWLASIY 204
I L N L E N F + P + G I+
Sbjct: 140 TYIPKDNVGPFKDKLSENGLAQEGNYEYCFFESEGRGQFKPVGEANPTIGQIDKIEDVDE 199
Query: 205 NISEYYPLVPSKPEKFNSMIAISHKINETDVVQHLTHIAEVAFGPQ---QAKESVTLFNP 261
E+ + + + + + ET V + +G + +TL +
Sbjct: 200 VKIEFM--IDAYQKSRAEQLIKQYHPYETPVFDFIEIKQTSLYGLGVMAEVDNQMTLEDF 257
Query: 262 RYEIKASLISHDIPG-HLSKENEIMINSIAVCAGSGGELL---RGKKADLYITDATHRGT 317
+IK+ L +IP E+ I IA+ GSG + AD+++
Sbjct: 258 AADIKSKL---NIPSVRFVGESNQKIKRIAIIGGSGIGYEYQAVQQGADVFV-------- 306
Query: 318 TVLLLEHSDSELHIHHVLHVYHILILGFVTGEMSHHDVLDATHRGTTVLLLEHSDSERPF 377
TG++ HHD LDA G ++ + H SE
Sbjct: 307 -----------------------------TGDIKHHDALDAKIHGVNLIDINHY-SEYVM 336
Query: 378 LQTMHTLLQIRLWHYLDWLKIYVSKADKDPIGYV 411
+ + TLL + + S + DP Y+
Sbjct: 337 KEGLKTLLMNWFNIEKINIDVEASTINTDPFQYI 370
>2fyw_A Conserved hypothetical protein; structural genomics, PSI, midwest
CENT structural genomics, MCSG, protein structure
initiative; 2.40A {Streptococcus pneumoniae} SCOP:
c.135.1.1
Length = 267
Score = 107 bits (269), Expect = 5e-27
Identities = 47/234 (20%), Positives = 75/234 (32%), Gaps = 65/234 (27%)
Query: 181 AVYSPHTTWDAIQGGINDWLASIYNISEYYPLVPSKPEKFNSMIAISHKINETDVVQHLT 240
AVY HT D ++ G+NDW + I E L + PE+ I ++ Q +
Sbjct: 96 AVYVSHTNIDIVENGLNDWFCQMLGIEETTYLQETGPERGIGRIGNIQPQTFWELAQQV- 154
Query: 241 HIAEVAFGPQQAKESVTLFNPRYEIKASLISHDIPGHLSKENEIMINSIAVCAGSGGELL 300
K+ L + R D+ + I+ +A+C GSG
Sbjct: 155 ------------KQVFDLDSLRM---VHYQEDDL--------QKPISRVAICGGSGQSFY 191
Query: 301 ---RGKKADLYITDATHRGTTVLLLEHSDSELHIHHVLHVYHILILGFVTGEMSHHDVLD 357
K AD+YI TG++ +H D
Sbjct: 192 KDALAKGADVYI-------------------------------------TGDIYYHTAQD 214
Query: 358 ATHRGTTVLLLEHSDSERPFLQTMHTLLQIRLWHYLDWLKIYVSKADKDPIGYV 411
G L H E F++ + LL + I S+A +P ++
Sbjct: 215 MLSDGLLALDPGHY-IEVIFVEKIAALLSQWKEDKGWSIDILPSQASTNPFHHI 267
Score = 67.3 bits (165), Expect = 7e-13
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 85 VTNDKWKERVVSTCLAHNIAVYSPHTTWDAIQGGINDWLASIYNISEYYPLVPSKPEKFN 144
+ + + ++ + H+IAVY HT D ++ G+NDW + I E L + PE+
Sbjct: 77 LLASRPQNQIYIDLIKHDIAVYVSHTNIDIVENGLNDWFCQMLGIEETTYLQETGPERGI 136
Query: 145 SMI 147
I
Sbjct: 137 GRI 139
>2gx8_A NIF3-related protein; structural genomics, unknown function,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: EPE; 2.20A {Bacillus
cereus} SCOP: c.135.1.1
Length = 397
Score = 108 bits (271), Expect = 2e-26
Identities = 62/333 (18%), Positives = 114/333 (34%), Gaps = 44/333 (13%)
Query: 85 VTNDKWKERVVSTCLAHNIAVYSPHTTWDAIQGGINDWLASIYNISEYYPLVPSKPEKFN 144
+ DK +++ C+ ++IA+Y+ HT D +GG+ND LA + L P+ E+
Sbjct: 103 IHTDKAYGKIIEKCIKNDIAIYAAHTNVDVAKGGVNDLLAEALGLQNTEVLAPTYAEEMK 162
Query: 145 SMIAISHKIFRLLLRP-LFNNNLNLEKNETSIKFPFFAVYSPHTTWDAIQG-GINDWLAS 202
++ +R L + N + F + G L
Sbjct: 163 KVVVFVPVTHAEEVRKALGDAGAGHIGNYSHCTFSSEGTGTFVPQEGTNPYIGETGQLER 222
Query: 203 IYNISEYYPLVPSKPEKFNSMIAISHKINETDVVQHLTHIAEVAFGP---QQAKESVTLF 259
+ + + S K + +H E + G +E +TL
Sbjct: 223 VEEVRIETIIPASLQRKVIKAMVTAHPYEEVAYDVYPLDNKGETLGLGKIGYLQEEMTLG 282
Query: 260 NPRYEIKASLISHDIPG-HLSKENEIMINSIAVCAGSGGELLRGKKADLYITDATHRGTT 318
+K SL D+ G + + + + +AV G G + + A +G
Sbjct: 283 QFAEHVKQSL---DVKGARVVGKLDDKVRKVAVLGGDGNKYIN---------QAKFKGAD 330
Query: 319 VLLLEHSDSELHIHHVLHVYHILILGFVTGEMSHHDVLDATHRGTTVLLLEHSDSERPFL 378
V +VTG+M +H DA G ++ H+ E+
Sbjct: 331 V-------------------------YVTGDMYYHVAHDAMMLGLNIVDPGHN-VEKVMK 364
Query: 379 QTMHTLLQIRLWHYLDWLKIYVSKADKDPIGYV 411
Q + LQ ++ + I+ S+ DP +V
Sbjct: 365 QGVQKQLQEKVDAKKLNVHIHASQLHTDPFIFV 397
>2yyb_A Hypothetical protein TTHA1606; structural genomics, unknown
function; 2.60A {Thermus thermophilus}
Length = 242
Score = 74.6 bits (184), Expect = 2e-15
Identities = 32/218 (14%), Positives = 56/218 (25%), Gaps = 76/218 (34%)
Query: 181 AVYSPHTTWD-AIQGGINDWLASIYNISEYYPLVPSKPEKFNSMIAISHKINETDVVQHL 239
+Y+ H D + G N LA + + P V
Sbjct: 92 NLYAAHLPLDAHEEVGNNFVLARELGLVDL------TPWDVGVKGRFPQPTPLLQVADR- 144
Query: 240 THIAEVAFGPQQAKESVTLFNPRYEIKASLISHDIPGHLSKENEIMINSIAVCAGSGGEL 299
+ + + + + ++ + +GSG L
Sbjct: 145 -------------------------LGQLT---GMQPLVHQGGLDHVETVILVSGSGTGL 176
Query: 300 LRGKKADLYITDATHRGTTVLLLEHSDSELHIHHVLHVYHILILGFVTGEMSHHDVLDAT 359
L ADL++T GE H +
Sbjct: 177 LPKVDADLFVT-------------------------------------GEPKHSVFHETF 199
Query: 360 HRGTTVLLLEHSDSERPFLQTMHTLLQIRL---WHYLD 394
RG V+ H D+E ++ + L+ R W +LD
Sbjct: 200 ERGLNVIYAGHYDTETFGVKALAAHLEARFGLPWVFLD 237
Score = 48.4 bits (116), Expect = 1e-06
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 90 WKERVVSTCLAHNIAVYSPHTTWD-AIQGGINDWLASIYNISEYYPL 135
+R + T I +Y+ H D + G N LA + + P
Sbjct: 78 HHKRRLETLFQGGINLYAAHLPLDAHEEVGNNFVLARELGLVDLTPW 124
>1nmo_A Hypothetical protein YBGI; toroidal structure, structure 2 project,
S2F, structural genomics, unknown function; 2.20A
{Escherichia coli} SCOP: c.135.1.1 PDB: 1nmp_A
Length = 247
Score = 74.2 bits (183), Expect = 2e-15
Identities = 30/221 (13%), Positives = 57/221 (25%), Gaps = 77/221 (34%)
Query: 181 AVYSPHTTWD-AIQGGINDWLASIYNISEYYPLVPSKPEKFNSMIAISHKINETDVVQHL 239
+Y H D + G N LA++ I+ + P P ++ + ++ +
Sbjct: 92 NLYGWHLPLDAHPELGNNAQLAALLGITVMGEIEPLVP-----WGELTMPVPGLELASWI 146
Query: 240 THIAEVAFGPQQAKESVTLFNPRYEIKASLISHDIPGHLSKENEIMINSIAVCAGSGGEL 299
E G + P ++ +A C G G
Sbjct: 147 ----EARLGRK------------------------PLWCGDTGPEVVQRVAWCTGGGQSF 178
Query: 300 L---RGKKADLYITDATHRGTTVLLLEHSDSELHIHHVLHVYHILILGFVTGEMSHHDVL 356
+ D +IT GE+S +
Sbjct: 179 IDSAARFGVDAFIT-------------------------------------GEVSEQTIH 201
Query: 357 DATHRGTTVLLLEHSDSERPFLQTMHTLLQIRL---WHYLD 394
A +G H +ER ++ + L ++D
Sbjct: 202 SAREQGLHFYAAGHHATERGGIRALSEWLNENTDLDVTFID 242
Score = 52.7 bits (127), Expect = 5e-08
Identities = 16/63 (25%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 76 LLWRVNGPGVTNDKWKERVVSTCLAHNIAVYSPHTTWD-AIQGGINDWLASIYNISEYYP 134
W+ V K + T LA++I +Y H D + G N LA++ I+
Sbjct: 66 YFWK-GESPVIRG-MKRNRLKTLLANDINLYGWHLPLDAHPELGNNAQLAALLGITVMGE 123
Query: 135 LVP 137
+ P
Sbjct: 124 IEP 126
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 68.5 bits (167), Expect = 2e-12
Identities = 80/525 (15%), Positives = 140/525 (26%), Gaps = 213/525 (40%)
Query: 2 LYYRVVTFVSFQ-HSHCCQHFHAC---SHQGFGSC------IHTVA-----NTSTHVLIK 46
L + + +VS F F +C IH +A T ++
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKT 119
Query: 47 DSDLGTYLSVLYSSPRKYDSVTVAKCPVALLWRVNGPGVTNDKWKERVVSTCLAHNIAVY 106
+ Y++ + R +D + AL V N +
Sbjct: 120 KELIKNYITARIMAKRPFDKKS----NSALFRAVG------------------EGNAQLV 157
Query: 107 SPHTTWDAI---QGGINDW---LASIYNISEYYPLVPSKPEKFNSMIAISHKIFRLLLR- 159
AI QG +D+ L +Y Y+ LV +I S + L+R
Sbjct: 158 -------AIFGGQGNTDDYFEELRDLYQT--YHVLV-------GDLIKFSAETLSELIRT 201
Query: 160 -----PLFNNNLN----LEKNETS----------IKFPF--------FAV------YSPH 186
+F LN LE + I P + V ++P
Sbjct: 202 TLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG 261
Query: 187 TTWDAIQG------GI---------NDWLASIYNIS---------------EYYPLVPSK 216
++G G+ + W S + E YP
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSW-ESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 217 PEKFNSMIAISHKINETD-----VVQHLT------HIAEV-AFGPQQAKESVTLFN-PRY 263
P S++ S + NE + +LT ++ + + P + ++L N +
Sbjct: 321 P----SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 264 EIKA----SLISHDIPGHLSKENEIMINSIAVCAGSGGE----LLRGKKADL-------- 307
+ + SL ++ L K A SG + +K
Sbjct: 377 LVVSGPPQSLYGLNL--TLRK----------AKAPSGLDQSRIPFSERKLKFSNRFLPVA 424
Query: 308 ------YITDATHRGTTVLLLEH---SDSELHIHHVLHVYHILILGFVTGEMSHHDVLDA 358
+ A+ L+ + + ++ I VY G D
Sbjct: 425 SPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI----PVYD-----TFDGS----D---- 467
Query: 359 THRGTTVLLLEHSDSERPFLQTMHTLLQIRLW---------HYLD 394
L S S + L ++ W H LD
Sbjct: 468 --------LRVLSGSISERIVDCIIRLPVK-WETTTQFKATHILD 503
Score = 28.1 bits (62), Expect = 7.9
Identities = 39/275 (14%), Positives = 75/275 (27%), Gaps = 87/275 (31%)
Query: 146 MIAISHKIFRLLLRPLFNNNLNLEKNETSIKFP--FFAVYSPHTTWDAIQGGINDWLASI 203
M A S RPL L+ E + P F + S + + +
Sbjct: 1 MDAYS-------TRPL---TLSHGSLEHVLLVPTASFFIAS--QLQE-------QFNKIL 41
Query: 204 YNISEYY-----PLVPSKPE---KFNSMIAISHKINETDVVQHLTHIAEVAFGPQQAKES 255
+E + P + E KF ++ + + +V
Sbjct: 42 PEPTEGFAADDEPT--TPAELVGKFLGYVS--SLVEP----SKVGQFDQVL------NLC 87
Query: 256 VTLFNPRY----EIKASLISHDIPGHLSKENEIMINSIAVCAGSGGELLRG-KKADLYIT 310
+T F Y +I H + L +EN+ + EL++ A +
Sbjct: 88 LTEFENCYLEGNDI------HALAAKLLQENDTTLVKTK-------ELIKNYITARIMAK 134
Query: 311 DATHRGTTVLLLEHSDSELHIHHVLHVYHILILGFVTGEMSHHDVLD------ATHRGTT 364
+ + L + I G G+ + D + T+
Sbjct: 135 RPFDKKSNSALFRAVGEG-----NAQLV--AIFG---GQGNTDDYFEELRDLYQTYHV-- 182
Query: 365 VLLLEHSDSERPFLQTMHTLLQIRLWHYLDWLKIY 399
L+ ++ L + LD K++
Sbjct: 183 --LVG------DLIKFSAETLSELIRTTLDAEKVF 209
>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 = 33.4 bits (75), Expect = 0.052
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 11/37 (29%)
Query: 167 NLEKNETSIKFPFFAVYSPHTTWDAIQGGINDWLASI 203
L+K + S+K +Y+ + A+ I A++
Sbjct: 21 ALKKLQASLK-----LYADDSA-PAL--AIK---ATM 46
>1k32_A Tricorn protease; protein degradation, substrate gating, serine
protease, beta propeller, proteasome, hydrolase; 2.00A
{Thermoplasma acidophilum} SCOP: b.36.1.3 b.68.7.1
b.69.9.1 c.14.1.2 PDB: 1n6e_A 1n6d_A 1n6f_A*
Length = 1045
Score = 30.5 bits (68), Expect = 1.3
Identities = 12/53 (22%), Positives = 19/53 (35%), Gaps = 3/53 (5%)
Query: 362 GTTVLLLEHSDSERPFLQTMHTLLQIRLWHYLDWLKI---YVSKADKDPIGYV 411
GT+ + + L R Y W++ YV + K IGY+
Sbjct: 804 GTSARIRLSGKGGDKRDLMIDILDDDRFIRYRSWVEANRRYVHERSKGTIGYI 856
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 29.4 bits (65), Expect = 3.0
Identities = 19/79 (24%), Positives = 26/79 (32%), Gaps = 27/79 (34%)
Query: 332 HHVLHVYHILILGFVTGEMSHH--DVLDATHRGTTVLLLEHSDSERPFLQTMHTLLQIRL 389
HH H +H + F TGE + D+L S E F+
Sbjct: 1 HH--HHHH---MDFETGEHQYQYKDIL--------------SVFEDAFVDNFD------C 35
Query: 390 WHYLDWLKIYVSKADKDPI 408
D K +SK + D I
Sbjct: 36 KDVQDMPKSILSKEEIDHI 54
>3h92_A Uncharacterized ATP-binding protein mjecl15; protein with unknown
function, structural genomics, PSI; HET: PG6; 2.20A
{Methanocaldococcus jannaschii}
Length = 92
Score = 27.1 bits (60), Expect = 3.9
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 254 ESVTLFNPRYEIKASLISHDIPGHLSKENEIMINSI 289
E++ LF YE+ S I I L KEN + +N
Sbjct: 38 EALKLFKDNYELPKSKIKRKIRIFLIKENILFLNPQ 73
>2dph_A Formaldehyde dismutase; dismutation of aldehydes, oxidoreductase;
HET: NAD; 2.27A {Pseudomonas putida}
Length = 398
Score = 28.4 bits (64), Expect = 4.9
Identities = 9/49 (18%), Positives = 14/49 (28%), Gaps = 4/49 (8%)
Query: 5 RVVTFVSFQHSHCCQHFHACSHQGFGSCIHTVANTSTHVLIKDSDLGTY 53
V V F + C C C + + N + DL +
Sbjct: 87 LVS--VPFNVA--CGRCRNCKEARSDVCENNLVNPDADLGAFGFDLKGW 131
>2wvf_A Hpnikr, putative nickel-responsive regulator; transcription factor,
transcription regulation, RHH, DNA-binding,
transcription, metal-binding; 1.60A {Helicobacter
pylori} PDB: 2wvc_A 3pht_A 2ca9_A 2cad_A* 2caj_A 3lgh_A
2wvd_A 2wve_A* 2wvb_A 2y3y_A* 3qsi_B
Length = 148
Score = 26.9 bits (59), Expect = 8.3
Identities = 18/105 (17%), Positives = 35/105 (33%), Gaps = 10/105 (9%)
Query: 270 ISHDIPGHLSKENEIMIN-------SIAVCAGSGGELLRGKKADLYITDATHRGTTVLLL 322
S + +L E + I S V +L+ A+ D + V++
Sbjct: 13 FSVSLQQNLLDELDNRIIKNGYSSRSELVRDMIREKLVEDNWAEDNPNDESKIAVLVVIY 72
Query: 323 EHSDSEL--HIHHVLHVYHILILGFVTGEMSHHDVLDATH-RGTT 364
+ EL + + H +L M H+ L+ +G +
Sbjct: 73 DGGQRELNQRMIDIQHASGTHVLCTTHIHMDEHNCLETIILQGNS 117
>1of8_A Phospho-2-dehydro-3-deoxyheptonate aldolase, tyrosine-inhibited;
beta-alpha-barrel, lyase, synthase, synthetase; HET: PEP
G3P; 1.5A {Saccharomyces cerevisiae} SCOP: c.1.10.4 PDB:
1oab_A* 1of6_A* 1hfb_A* 1ofa_A* 1ofb_A 1ofo_A 1ofp_A
1ofq_A 1ofr_A* 1og0_A*
Length = 370
Score = 27.6 bits (62), Expect = 9.0
Identities = 17/73 (23%), Positives = 26/73 (35%), Gaps = 15/73 (20%)
Query: 13 QHSHCCQHFHACSHQGFGSCIHTVANTSTHVLIKDSDLGTYLSVLYSSPRKYDSVTVAKC 72
HSH HF + G + T N V+++ GT YD+ +VA+
Sbjct: 219 AHSH---HFMGVTKHGVAAITTTKGNEHCFVILRGGKKGT----------NYDAKSVAEA 265
Query: 73 PVALLWRVNGPGV 85
L G+
Sbjct: 266 KAQL--PAGSNGL 276
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.321 0.136 0.424
Gapped
Lambda K H
0.267 0.0774 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,436,697
Number of extensions: 376530
Number of successful extensions: 702
Number of sequences better than 10.0: 1
Number of HSP's gapped: 686
Number of HSP's successfully gapped: 29
Length of query: 411
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 315
Effective length of database: 4,021,377
Effective search space: 1266733755
Effective search space used: 1266733755
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.0 bits)