RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4459
(400 letters)
>1rlz_A DHS, deoxyhypusine synthase; rossman fold, NAD cofactor, spermid
transferase; HET: NAD; 2.15A {Homo sapiens} SCOP:
c.31.1.1 PDB: 1roz_A* 1rqd_A* 1dhs_A*
Length = 369
Score = 189 bits (480), Expect = 1e-56
Identities = 132/233 (56%), Positives = 169/233 (72%), Gaps = 14/233 (6%)
Query: 1 LECRRLDLPEDKIDTYEEDLFIVRKHNCTIFLGYTSNMVSSGVRETIKFLVQHKLVDAIV 60
+E + L +D+ + +CTIFLGYTSN++SSG+RETI++LVQH +VD +V
Sbjct: 70 IEKKLEPLSQDEDQHADLTQSRRPLTSCTIFLGYTSNLISSGIRETIRYLVQHNMVDVLV 129
Query: 61 TTAGGVEEDLIKCLAPSYVGDFQLDGKTLRDEGINRIDYGSEHGKKGSHVSKVHAVPNDN 120
TTAGGVEEDLIKCLAP+Y+G+F L GK LR+ GINRI VPN+N
Sbjct: 130 TTAGGVEEDLIKCLAPTYLGEFSLRGKELRENGINRI--------------GNLLVPNEN 175
Query: 121 YCAFENWLMPILDTMLREQKETGTVWTPSRIISRLGMEINHEDSICYWAAHNHIPIFSPA 180
YC FE+WLMPILD M+ EQ G WTPS++I+RLG EIN+ +S+ YWA NHIP+FSPA
Sbjct: 176 YCKFEDWLMPILDQMVMEQNTEGVKWTPSKMIARLGKEINNPESVYYWAQKNHIPVFSPA 235
Query: 181 LTDGSLGDMMYFHSFRNPGLICDILQDLRRLNTMAVKAVNTGMIILGGAEINH 233
LTDGSLGDM++FHS++NPGL+ DI++DLR +NT A+ A TGMIILGG + H
Sbjct: 236 LTDGSLGDMIFFHSYKNPGLVLDIVEDLRLINTQAIFAKCTGMIILGGGVVKH 288
Score = 147 bits (372), Expect = 6e-41
Identities = 93/128 (72%), Positives = 112/128 (87%)
Query: 228 GAEINHEDSICYWAAHNHIPIFSPALTDGSLGDMMYFHSFRNPGLICDILQDLRRLNTMA 287
G EIN+ +S+ YWA NHIP+FSPALTDGSLGDM++FHS++NPGL+ DI++DLR +NT A
Sbjct: 211 GKEINNPESVYYWAQKNHIPVFSPALTDGSLGDMIFFHSYKNPGLVLDIVEDLRLINTQA 270
Query: 288 VKAVNTGMIILGGGVIKHHICNANLMRNGADYAVFINTGVEYDGSDSGARPDEAKSWGKI 347
+ A TGMIILGGGV+KHHI NANLMRNGADYAV+INT E+DGSDSGARPDEA SWGKI
Sbjct: 271 IFAKCTGMIILGGGVVKHHIANANLMRNGADYAVYINTAQEFDGSDSGARPDEAVSWGKI 330
Query: 348 KREARPVK 355
+ +A+PVK
Sbjct: 331 RVDAQPVK 338
>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 = 41.8 bits (97), Expect = 4e-04
Identities = 49/339 (14%), Positives = 90/339 (26%), Gaps = 94/339 (27%)
Query: 5 RLDLPEDKIDTYEEDLFIVRKH-NCTIFLGYTSNMVSSGVRETIK-FLVQHKLVDAIVTT 62
+ L I L + + NC + L N V + + F + K+ ++TT
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLVL---LN-VQN--AKAWNAFNLSCKI---LLTT 272
Query: 63 A-GGVEEDLIKCLAPSYVGDFQLDGKTLRDEGIN------RIDYGS--EHGKKGS--HVS 111
V + L D T DE + + +S
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLT-PDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 112 KVHAVPNDNYCAFENWLMPILDTMLREQKETGTVWTPSRIISRLGMEINHEDSI----CY 167
+ D ++NW D + + II +N + +
Sbjct: 332 IIAESIRDGLATWDNWKHVNCDKL-------------TTIIE---SSLNVLEPAEYRKMF 375
Query: 168 WA-----AHNHIP-----IFSPALTDGSLGDMMYFHSFRNPGL-----------ICDILQ 206
HIP + + + ++ + L I I
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV--NKLHKYSLVEKQPKESTISIPSIYL 433
Query: 207 DLRR-------LNTMAVKAVNTGMII-LGGAEINHEDSICYWAAH--NHIPIFSPALTDG 256
+L+ L+ V N + D Y+ +H +H+
Sbjct: 434 ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ--YFYSHIGHHLKNIEHPERM- 490
Query: 257 SLGDMMYFHSFR--------------NPGLICDILQDLR 281
+L M++ FR G I + LQ L+
Sbjct: 491 TLFRMVFL-DFRFLEQKIRHDSTAWNASGSILNTLQQLK 528
Score = 40.2 bits (93), Expect = 0.001
Identities = 52/350 (14%), Positives = 102/350 (29%), Gaps = 113/350 (32%)
Query: 68 EDLIKCLAPSYVGDFQLDGKTLRDEGINRIDYGSEHGKKGSHVSKVHAVPNDNYCAFENW 127
+D++ ++V +F D K ++D + + + + + +
Sbjct: 19 KDILSVFEDAFVDNF--DCKDVQDMPKSIL--------SKEEIDHIIMSKDA-----VSG 63
Query: 128 LMPILDTMLREQKET-----GTV------WTPSRI----ISRLGMEINHEDSICYWAAHN 172
+ + T+L +Q+E V + S I M + + +N
Sbjct: 64 TLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIE--QRDRLYN 121
Query: 173 HIPIFSPALTDGSLGDMMYFHSFRNPGLICDILQDLRRLNTMAVKAVNTGMIILGGA--- 229
+F+ ++ R + Q L L ++ G+ G+
Sbjct: 122 DNQVFAK------------YNVSR-LQPYLKLRQALLELRPAKNVLID-GV---LGSGKT 164
Query: 230 ------------EINHEDSICYWA--AHNHIP------------IFSPALTDGSLGDMMY 263
+ + I +W + + P P T S D
Sbjct: 165 WVALDVCLSYKVQCKMDFKI-FWLNLKNCNSPETVLEMLQKLLYQIDPNWT--SRSD--- 218
Query: 264 FHSFRNPGLICDILQDLRRLNTMAVKAVNTGMIILGGGVIKHHICNAN-----------L 312
HS I I +LRRL + K +++L ++ NA L
Sbjct: 219 -HSSNIKLRIHSIQAELRRL--LKSKPYENCLLVL------LNVQNAKAWNAFNLSCKIL 269
Query: 313 M--RNG--ADYAVFINTG-VEYDGSDSGARPDEAKS----WGKIKREARP 353
+ R D+ T + D PDE KS + + + P
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Score = 39.1 bits (90), Expect = 0.003
Identities = 40/276 (14%), Positives = 80/276 (28%), Gaps = 87/276 (31%)
Query: 1 LECRRLDLPED--KIDTYEEDLF--IVRKHNCTI--FLGYTSNMVSSGVRETIKFL---- 50
L+CR DLP + + + +R T + + +++ + ++ L
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 51 VQH---KLV----DAIVTTA-----------GGVEEDLIKCLAPS-----------YVGD 81
+ +L A + T V + K S +
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS 430
Query: 82 FQLDGKTLRDE--GINR--ID-YGSEHGKKGSHVSKVHAVPNDNYCAF------------ 124
L+ K + ++R +D Y + D Y
Sbjct: 431 IYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP---PYLDQYFYSHIGHHLKNIEHP 487
Query: 125 ENW-LMPI--LDTMLR--EQK--ETGTVWT-PSRIISRLGMEINHEDSICYWAAHNHIPI 176
E L + LD R EQK T W I++ L ++ IC ++ P
Sbjct: 488 ERMTLFRMVFLD--FRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYIC-----DNDPK 540
Query: 177 FSPALTDGSLGDMMYF------HSFRNPGLICDILQ 206
+ + + ++ F + + D+L+
Sbjct: 541 Y-----ERLVNAILDFLPKIEENLICSK--YTDLLR 569
>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 = 40.4 bits (94), Expect = 0.001
Identities = 50/281 (17%), Positives = 79/281 (28%), Gaps = 120/281 (42%)
Query: 1 LECRRLDLPE-----DKIDTY---EEDLFIVRKHNCTIFLGYTSNMVSSGVRETIKFLVQ 52
L L + +K +++ + + I N G N+V SG +++ L
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQVEISL-VN-----GAK-NLVVSGPPQSLYGLNL 391
Query: 53 HKLVDAIVTTAGGVEEDLIKCLAPSYVGDFQLDGKTLRDEGINRIDYGSEHGKKGSH--- 109
L K APS G Q +RI + SE K S+
Sbjct: 392 T----------------LRKAKAPS--GLDQ-----------SRIPF-SERKLKFSNRFL 421
Query: 110 -VSKVHAVPNDNYCAF-ENWLMPILDTMLREQKETGTVWTPSRIISRLGMEINHEDSICY 167
V+ P F + L+P D + ++ + + I
Sbjct: 422 PVA----SP------FHSHLLVPASDLINKDLVKNNVSFNAKDI---------------- 455
Query: 168 WAAHNHIPIFSPALTDGSLGDMMYFHSFRNPGLICDILQDLRRLNTMAVKAVNTGMIILG 227
IP++ DGS DLR L+ + + II
Sbjct: 456 -----QIPVYDTF--DGS---------------------DLRVLSGSISERI-VDCIIR- 485
Query: 228 GAEINHEDSICYW-AAHN----HIPIFSPALTDGSLGDMMY 263
W HI F P G LG + +
Sbjct: 486 --------LPVKWETTTQFKATHILDFGPGGASG-LGVLTH 517
Score = 33.1 bits (75), Expect = 0.22
Identities = 61/389 (15%), Positives = 118/389 (30%), Gaps = 116/389 (29%)
Query: 7 DLPEDKIDTYEEDLFIVRKHNCTIFLGYTSNMVSSG----VRETIKFLVQ---------- 52
LPE +D FLGY S++V + + +
Sbjct: 40 ILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN 99
Query: 53 --HKLV---DAIVTTAGGVEEDLIKCLAPSYVGDFQLDGKTLRDEGINRIDYGSEHGKKG 107
H L T ++LIK Y+ + + + + + +G
Sbjct: 100 DIHALAAKLLQENDTTLVKTKELIKN----YITARIMAKRPFDKKSNSAL---FRAVGEG 152
Query: 108 SHVSKVHAV-----PNDNYCAFE----------NWLMPILDTMLRE-QKETGTVWTPSRI 151
+ +++ A+ D+Y FE + ++ + T ++
Sbjct: 153 N--AQLVAIFGGQGNTDDY--FEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKV 208
Query: 152 ISRLGMEI----NHEDSI---CYWAAHNHIPIFSPALTDGSLGDMMYFHSFR----NPGL 200
++ G+ I + + Y IPI P + L Y + + PG
Sbjct: 209 FTQ-GLNILEWLENPSNTPDKDYLL---SIPISCPLIGVIQLAH--YVVTAKLLGFTPGE 262
Query: 201 ICDILQDLRRLNTMAVKAVNTGMIILGGAEINHEDS----------ICYW---AAHNHIP 247
+ L+ T + + T + I AE + +S + ++ + P
Sbjct: 263 LRSYLKGA----TGHSQGLVTAVAI---AETDSWESFFVSVRKAITVLFFIGVRCYEAYP 315
Query: 248 I--FSPALTDGSLGD-------MMYFHSFRNPGLICDILQDLRRLNTMAVKAVNTGMIIL 298
P++ + SL + M+ S L + +QD V N+ L
Sbjct: 316 NTSLPPSILEDSLENNEGVPSPML---SIS--NLTQEQVQDY-------VNKTNSH---L 360
Query: 299 GGGVIKH-HICNANLMRNGADYAVFINTG 326
G K I + NGA + +G
Sbjct: 361 PAG--KQVEIS----LVNGAK--NLVVSG 381
>3ffr_A Phosphoserine aminotransferase SERC; structural genomics, JO center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: LLP MSE P33; 1.75A {Cytophaga hutchinsonii
atcc 33406}
Length = 362
Score = 28.4 bits (64), Expect = 4.0
Identities = 19/124 (15%), Positives = 37/124 (29%), Gaps = 22/124 (17%)
Query: 272 LICDILQDLRRLNTMAVKAVNTGMIILGGGVIKHHICNANLMRNGADYAV-------FIN 324
+ +L+ L + + + N ++ L N + + + V F
Sbjct: 44 VYKTASDNLKTL--LELPS-NYEVLFLASATEIWERIIQNCVEKKSFHCVNGSFSKRFYE 100
Query: 325 TGVEYDGSDSGARPD-EAKSWGKIKREARPVKRNGADYAVFI--N---TGVEYDGSDSGA 378
E G E ++GK A A+ + + N +GV D
Sbjct: 101 FAGEL-----GREAYKEEAAFGKGFYPADITVPADAEI-ICLTHNETSSGVSMPVEDINT 154
Query: 379 RPDE 382
D+
Sbjct: 155 FRDK 158
>2z1d_A Hydrogenase expression/formation protein HYPD; [NIFE] hydrogenase
maturation, [4Fe-4S] cluster, thiol redox binding
protein; HET: CSW; 2.07A {Thermococcus kodakarensis}
Length = 372
Score = 27.7 bits (62), Expect = 6.4
Identities = 10/60 (16%), Positives = 24/60 (40%), Gaps = 6/60 (10%)
Query: 189 MM-YFHSFRNPGLICDILQDLRRLNTMAVKAVNTGMIILGGAEINHEDSICYWAAHNHIP 247
M F ++R+ + +++ +R + M + G HED++ + +P
Sbjct: 1 MEEPFEAYRSREVAMKLVEKIREEAKTLDGEIRI-MHVCGT----HEDTVTRHGIRSLLP 55
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
0.320 0.138 0.426
Gapped
Lambda K H
0.267 0.0620 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,584,584
Number of extensions: 412022
Number of successful extensions: 802
Number of sequences better than 10.0: 1
Number of HSP's gapped: 795
Number of HSP's successfully gapped: 13
Length of query: 400
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 304
Effective length of database: 4,021,377
Effective search space: 1222498608
Effective search space used: 1222498608
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 (21.8 bits)
S2: 58 (26.4 bits)