RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2489
(369 letters)
>2nwl_A GLTPH, glutamate symport protein; alpha helical, membrane protein,
helical hairpin, unwound RE transport protein; HET: PLM;
2.96A {Pyrococcus horikoshii} PDB: 2nww_A* 1xfh_A*
2nwx_A* 3v8g_A 3v8f_A 3kbc_A
Length = 422
Score = 105 bits (265), Expect = 1e-25
Identities = 68/281 (24%), Positives = 123/281 (43%), Gaps = 39/281 (13%)
Query: 92 LGIIFFCIVFGAILGTL--------GPKKKTVLEFFQTVYTIMLKILLIAIWMTPIGVCS 143
L IFF I+ G + L +T+L+ + M KI+ + PIGV +
Sbjct: 152 LPTIFFAIILGIAITYLMNSENEKVRKSAETLLDAINGLAEAMYKIVNGVMQYAPIGVFA 211
Query: 144 VITSKLISIEDMTVTMRQLSKFVATSIGGFLVYHLIVIQLIYFLFTRKNPYKYYVNFFPA 203
+I + +++ + + V + +L+K A G + ++++ + +P + + A
Sbjct: 212 LI-AYVMAEQGVHV-VGELAKVTAAVYVGLTL-QILLVYFVLLKIYGIDPISFIKHAKDA 268
Query: 204 ILTAFATSSKSAALPITFQVMDEKVKMSQQVTRFVLPIGNSIHMTGLAQMTPIGVCSVIT 263
+LTAF T S S LP+T +V +++ +S+ + F LP+G +I+M G A GVC+
Sbjct: 269 MLTAFVTRSSSGTLPVTMRVA-KEMGISEGIYSFTLPLGATINMDGTALY--QGVCTFFI 325
Query: 264 SKLISIEDMTVTMRQLSKFVAT--SIG-------GFLVYHLIVIQLIYFLFTRKNPYKYY 314
+ + +TV + A SIG G ++ +V+ + T N Y
Sbjct: 326 ANALGS-HLTVGQQLTIVLTAVLASIGTAGVPGAGAIML-AMVLHSVGLPLTDPNVAAAY 383
Query: 315 VNFFPAILTAFATSSKDRV----RTTVNLMGDCYAVAVVDH 351
A++ D + RT VN+ GD A+V
Sbjct: 384 -----AMILGI-----DAILDMGRTMVNVTGDLTGTAIVAK 414
>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 = 49.5 bits (117), Expect = 1e-06
Identities = 45/304 (14%), Positives = 87/304 (28%), Gaps = 107/304 (35%)
Query: 99 IVFGAILGTLGPKKKTVL------------EFFQTVYTIMLKILLIAIWMTPIGVCSVIT 146
++ G +LG+ G KT + + ++ W+ + C+
Sbjct: 154 LIDG-VLGS-G---KTWVALDVCLSYKVQCKMDFKIF-----------WLN-LKNCNSPE 196
Query: 147 SKLISIEDMTVTMRQ-LSKFVATSIGGFLVYHLIVIQLIYFLFTRKNPYKYYV-----NF 200
+ L ++ + + + S L H I +L L ++ V N
Sbjct: 197 TVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN- 255
Query: 201 FPAILTAFATSSKSAALPITFQVMDEKVKMSQQVTRFVLPIGNSIHMTGLAQMTPIGVCS 260
AF S K L T +QVT F+ S
Sbjct: 256 -AKAWNAFNLSCKI--LLTT---------RFKQVTDFL---------------------S 282
Query: 261 VITSKLISIEDMTV------TMRQLSKFVATSIGGF---------LVYHLIVIQLIYFLF 305
T+ IS++ ++ L K++ +I + L
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA 342
Query: 306 TRKNPYKYYVNFFPAILTAFATSSKDRVRTTVNLMGDCYAVAVVDHLSRHELQDSVDDYV 365
T N +K+ + D++ T + + ++ L E + D
Sbjct: 343 TWDN-WKHV--------------NCDKLTTIIE--------SSLNVLEPAEYRKMFDRLS 379
Query: 366 LFPE 369
+FP
Sbjct: 380 VFPP 383
Score = 46.0 bits (108), Expect = 2e-05
Identities = 42/317 (13%), Positives = 93/317 (29%), Gaps = 83/317 (26%)
Query: 113 KTVLEFFQTVYTIMLKILLIAIWMTPIGVCSVITSKLISIEDMTV------TMRQLSKFV 166
F + KILL + S T+ IS++ ++ L K++
Sbjct: 256 AKAWNAF----NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311
Query: 167 ATSIGGF---------LVYHLIVIQLIYFLFTRKNPYKYYVNFFPAILTAFATSSKSAAL 217
+I + L T N +K+ + T +S L
Sbjct: 312 DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN-WKHV--NCDKLTTIIESSLN--VL 366
Query: 218 -PITFQ-------VMDEKVKMSQQV---------TRFVLPIGNSIHMTGLAQMTP----I 256
P ++ V + + V+ + N +H L + P I
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426
Query: 257 GVCSVITSKLISIEDMTVTMRQL------------SKFVATSIGG----FLVYHLIVIQL 300
+ S+ + +E+ R + + + + +HL I+
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEH 486
Query: 301 I--YFLFTRKNPYKYYVNF-FPAILTA---FATSSKDRVRTTVNLMGDC--YAVAVVDHL 352
LF +++F F L +++ + + +N + Y ++
Sbjct: 487 PERMTLFRMV-----FLDFRF---LEQKIRHDSTAWNASGSILNTLQQLKFYK----PYI 534
Query: 353 SRHELQDS--VDDYVLF 367
++ + V+ + F
Sbjct: 535 CDNDPKYERLVNAILDF 551
Score = 31.4 bits (70), Expect = 0.52
Identities = 15/155 (9%), Positives = 34/155 (21%), Gaps = 60/155 (38%)
Query: 173 FLVYHLIVIQLI--YFLFTRKNPYKYYVNFFPAILTAFATSSKSAALPITFQVMDEKVKM 230
+ +HL I+ LF +++F
Sbjct: 476 HIGHHLKNIEHPERMTLFRMV-----FLDF------------------------------ 500
Query: 231 SQQVTRFVLPIGNSIHMTGLAQMTPIGVCSVIT-----SKLISIEDMTVTMR--QLSKFV 283
RF + I A + + + I D + F+
Sbjct: 501 -----RF---LEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552
Query: 284 ATSIGGFLVY--HLIVIQLIYFLFTRKNPYKYYVN 316
I L+ + ++++ +
Sbjct: 553 -PKIEENLICSKYTDLLRIALM-----AEDEAIFE 581
>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 = 33.5 bits (76), Expect = 0.15
Identities = 74/414 (17%), Positives = 127/414 (30%), Gaps = 140/414 (33%)
Query: 15 DMEFSF-VSSKM-----------SADLDEKVEMKEKDMEFR---ELLDGTATLGIIFFCI 59
+E V + + L E E D E EL+ LG + +
Sbjct: 15 SLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELV--GKFLGYVSSLV 72
Query: 60 ------VFGAILGTLGPKKKTVLEFFQTVYTIIDGTATLGIIFFCIVFG----AILGTLG 109
F +L L F+ Y L G A+ L
Sbjct: 73 EPSKVGQFDQVL-------NLCLTEFENCY--------LE--------GNDIHALAAKLL 109
Query: 110 PKKKTVLEFFQTVYTIMLKILLIAIWMTPIGVCSVITSKLI-SIEDMTVTMRQLSKFVAT 168
+ T L + + +K + A M S L ++ + + VA
Sbjct: 110 QENDTTLVKTKEL----IKNYITARIMAKRPFDKKSNSALFRAVGEGNA------QLVA- 158
Query: 169 SI-GGFLVYHLIVIQ---LIYF-----LFTRKNPYKYYVNFFPAILTAFAT-----SSKS 214
I GG Q YF L+ Y V I + T +
Sbjct: 159 -IFGG---------QGNTDDYFEELRDLYQT---YHVLVGDL--IKFSAETLSELIRTTL 203
Query: 215 AALPITFQVMDEKVKMSQQVTR----FVL--PIGNSIHMTGLAQMTPIGVCSVITSKLIS 268
A + Q ++ + ++L PI S + G+ Q+ V+T+KL
Sbjct: 204 DAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI--SCPLIGVIQL----AHYVVTAKL-- 255
Query: 269 IEDMTVTMRQLSKFV--ATSIGGFLV-------------YHLIVIQLIYFLF---TRKNP 310
+ T +L ++ AT LV + + V + I LF R
Sbjct: 256 ---LGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRC-- 310
Query: 311 YKYY--VNFFPAILTAFATSSKDRVRTTVNLMGDCYAVAVVDHLSRHELQDSVD 362
Y+ Y + P+IL S + + M +++ + L++ ++QD V+
Sbjct: 311 YEAYPNTSLPPSILE----DSLENNEGVPSPM-----LSISN-LTQEQVQDYVN 354
Score = 28.9 bits (64), Expect = 3.9
Identities = 13/85 (15%), Positives = 24/85 (28%), Gaps = 38/85 (44%)
Query: 202 PAILTAFATSSKSAALPITFQVMDEKVKMSQQVTRFVLPIGNSI--HMTGLAQMTPIG-- 257
PA+ A F+ + K ++P + H +G
Sbjct: 1734 PALTLM------EKAA---FEDLKSK---------GLIPADATFAGH--------SLGEY 1767
Query: 258 ---VCSVITSKLISIEDM--TVTMR 277
+ ++SIE + V R
Sbjct: 1768 AALASL---ADVMSIESLVEVVFYR 1789
Score = 28.1 bits (62), Expect = 7.0
Identities = 23/130 (17%), Positives = 40/130 (30%), Gaps = 35/130 (26%)
Query: 172 GFLVYHLIVIQLIYFLFTRKNPYKYYVNF-----------FPAILTAFATSSKSAALPIT 220
GF + ++ NP ++F + A++ K I
Sbjct: 1658 GFSILDIV----------INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKI- 1706
Query: 221 FQVMDEKVKMSQQVTRFVLPIGNSIHMTGLAQMTPIGVCSVITSKLISIEDM-TVTMRQL 279
F+ ++E S T F G + T Q P + K ED+ + +
Sbjct: 1707 FKEINEH---STSYT-FRSEKG-LLSATQFTQ--P---ALTLMEKAA-FEDLKSKGLIPA 1755
Query: 280 SKFVAT-SIG 288
A S+G
Sbjct: 1756 DATFAGHSLG 1765
>3org_A CMCLC; transporter, transport protein; 3.50A {Cyanidioschyzon
merolae}
Length = 632
Score = 31.3 bits (71), Expect = 0.60
Identities = 26/146 (17%), Positives = 49/146 (33%), Gaps = 11/146 (7%)
Query: 50 ATLGIIFFCIVFGAILGTLGPKKKTVLEFFQTVYTIIDGTATLGIIFFCIVFGAILGTLG 109
+ GAI+ L V F T + D + + GA++G LG
Sbjct: 192 QAFWKGVLSALSGAIVYELLYTTPLVEAFEGTNFDASD--VSRTQTLLYAILGALMGVLG 249
Query: 110 PKKKTVLEFFQTVYTIMLKILLIAIWMTPIGVCSVITSKL-----ISIEDMTVTMRQL-S 163
+ +++Y + ++ +GV ++ S L + D T+ L
Sbjct: 250 ---ALFIRCVRSIYELRMRHYPGTNRYFLVGVVALFASALQYPFRLFALDPRATINDLFK 306
Query: 164 KFVATSIGGFLVYHLIVIQLIYFLFT 189
F LI++ +I F+
Sbjct: 307 AVPLYQTDHFGWTELILMPIIKFILV 332
>3hzp_A NTF2-like protein of unknown function; YP_291699.1, structural
genomics, joint center structural genomics, JCSG; HET:
MSE 1PE; 1.40A {Prochlorococcus marinus}
Length = 131
Score = 26.9 bits (59), Expect = 6.1
Identities = 7/38 (18%), Positives = 16/38 (42%)
Query: 237 FVLPIGNSIHMTGLAQMTPIGVCSVITSKLISIEDMTV 274
F+ P GN + G M G + ++++ + +
Sbjct: 35 FIRPSGNPLDAKGFENMWSSGDLVLESAEITKVHKFEL 72
>4djk_A Probable glutamate/gamma-aminobutyrate antiporter; LEUT,
glutamate-GABA antiporter, transport protein; 3.10A
{Escherichia coli} PDB: 4dji_A
Length = 511
Score = 27.5 bits (61), Expect = 7.2
Identities = 18/145 (12%), Positives = 47/145 (32%), Gaps = 9/145 (6%)
Query: 48 GTATLGIIFFCIVFGAILGTLGPKKKTVLEFFQTVYTIIDGTATLGIIFFCIVFGAILGT 107
G +I ++ L L F + T + + + ++F +
Sbjct: 336 GVPVTLVISQLVITSIALIILTNTGGGNNMSFLIALAL---TVVIYLCAYFMLFIGYI-V 391
Query: 108 LGPKKKTVLEFFQTVYTIMLKILLIAIWMTPIGVCSVITSKLISIEDMTVTMRQLSKFVA 167
L K + F +K+++ + + + +++ + + +V
Sbjct: 392 LVLKHPDLKRTFNIPGGKGVKLVVAIVGLLTSIMAFIVS----FLPPDNIQGDSTDMYVE 447
Query: 168 TSIGGFLVYHLIVIQLIYFLFTRKN 192
+ FLV + ++Y + RK
Sbjct: 448 LLVVSFLVVLALPF-ILYAVHDRKG 471
>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET:
AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1
Length = 222
Score = 27.2 bits (61), Expect = 8.4
Identities = 10/44 (22%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 75 VLEFFQTVYTIIDGTATLGIIFFCIVFGAILGTLGPKKKTVLEF 118
+L ++ + + G AT+ +F I +LG++ KK ++
Sbjct: 180 LLSTYENIIVKVQGDATVDAVFAKID--ELLGSILEKKNEMVSS 221
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
0.328 0.141 0.403
Gapped
Lambda K H
0.267 0.0616 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,468,184
Number of extensions: 327958
Number of successful extensions: 693
Number of sequences better than 10.0: 1
Number of HSP's gapped: 682
Number of HSP's successfully gapped: 18
Length of query: 369
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 274
Effective length of database: 4,049,298
Effective search space: 1109507652
Effective search space used: 1109507652
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 58 (26.4 bits)