RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12347
(428 letters)
>2j0a_A Beta-1,3-N-acetylglucosaminyltransferase manic FR;
glycosyltransferase, developmental protein,
transmembrane, G apparatus, notch signaling; 1.8A {Mus
musculus} PDB: 2j0b_A*
Length = 280
Score = 50.5 bits (120), Expect = 4e-07
Identities = 32/198 (16%), Positives = 64/198 (32%), Gaps = 24/198 (12%)
Query: 51 YNYERRRLIRNTWGPRVS--LYFFIGETDPSNQTRLDIESETYHDIVQGRFWDSYRNLTY 108
++ R L+ +TW R+ + F D Q RL + + Q S+ L+
Sbjct: 25 FHRSRLDLLLDTWVSRIRQQTFIFTDSPDERLQERLGP----HLVVTQCSAEHSHPALSC 80
Query: 109 KHTMVFKWVVYNCPHVKYVFKLDDDVFMNVIQLDELLTRTLSPHGTRNLLMCSIVWEKSP 168
K M ++ + +++ +DDD ++N + L + L + P
Sbjct: 81 K--MAAEFDAFLVSGLRWFCHVDDDNYVNP----KALLQLLKTFPQDRDVYVGKPSLNRP 134
Query: 169 VLRTYRSKWRVSFSEYRDHFYPPHCHGNILLYSPDVVFKLYQH------LQTDQEYFWVD 222
+ + S + + G + + K+ + T D
Sbjct: 135 IHASELQ----SKQRTKLVRFWFATGGAGFCINRQLALKMVPWASGSHFVDTSALIRLPD 190
Query: 223 DVFITGIVFSKLN--LTH 238
D + I+ KL L
Sbjct: 191 DCTVGYIIECKLGGRLQP 208
Score = 38.6 bits (89), Expect = 0.003
Identities = 21/99 (21%), Positives = 43/99 (43%), Gaps = 8/99 (8%)
Query: 331 YNYDKRRLIRNTWGTRVS--VYFFIGETDPSNQTRLDIESETYHDIVQGRFWDSYRNLTY 388
++ + L+ +TW +R+ + F D Q RL + + Q S+ L+
Sbjct: 25 FHRSRLDLLLDTWVSRIRQQTFIFTDSPDERLQERLGP----HLVVTQCSAEHSHPALSC 80
Query: 389 KHTMVFKWVVYNCPHVKYVLKLDDDVFMNVIQLDELLTR 427
K M ++ + +++ +DDD ++N L +LL
Sbjct: 81 K--MAAEFDAFLVSGLRWFCHVDDDNYVNPKALLQLLKT 117
>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 = 46.2 bits (109), Expect = 2e-05
Identities = 71/393 (18%), Positives = 121/393 (30%), Gaps = 157/393 (39%)
Query: 9 QSSSDLL-----PPDDSTRL----INLTNFEFLINP---PCLDTVYLVLIHSAPYNYERR 56
+ S++ L D+ ++ +N+ E+L NP P D YL+ S P +
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNI--LEWLENPSNTP--DKDYLL---SIPISC--- 238
Query: 57 RLIRNTWGPRVSL-----YFFIGET---DPSNQTRLDIESETYH--DIVQGRF------W 100
P + + Y + P R ++ T H +V W
Sbjct: 239 --------PLIGVIQLAHYVVTAKLLGFTPGE-LRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 101 DSYRNLTYKH-TMVFKWVVYNC----PHVKYVFK-LDDDV--------FMNVI------Q 140
+S+ K T++F ++ C P+ L+D + M I Q
Sbjct: 290 ESFFVSVRKAITVLF-FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ 348
Query: 141 LDELLTRT---LSPH---------GTRNLLMCSIVWEKSPV--------LRTYRSK---- 176
+ + + +T L G +NL++ P LR ++
Sbjct: 349 VQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG-----PPQSLYGLNLTLRKAKAPSGLD 403
Query: 177 -WRVSFSE------YRDHFYP---P-HCHGNILLYSPDVVFKLYQHLQTDQEYFWVDDVF 225
R+ FSE R F P P H H LL + + L + F D+
Sbjct: 404 QSRIPFSERKLKFSNR--FLPVASPFHSH---LLV--PASDLINKDLVKNNVSFNAKDIQ 456
Query: 226 ITGIVFSKLNLTHAKFSWWPGHDEPIVSLFNNWDLRKYDPH--KTLFALL------WEPD 277
I P+ F+ DLR + + + WE
Sbjct: 457 I-----------------------PVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWE-- 491
Query: 278 FVRLTSSDSTWQSSSDLLP--PDDSTRLINLTN 308
T +T +L P ++ L LT+
Sbjct: 492 --TTTQFKATH-----ILDFGPGGASGLGVLTH 517
Score = 38.5 bits (89), Expect = 0.004
Identities = 67/418 (16%), Positives = 109/418 (26%), Gaps = 151/418 (36%)
Query: 102 SYRNLTYKHTMVFKWVVYNCPHVKYVFKLDDDVFMNVIQLDELLTRTLSPHGTRN----- 156
S R LT H +++V + F QL E + L P T
Sbjct: 5 STRPLTLSH-----------GSLEHVLLVPTASFFIASQLQEQFNKIL-PEPTEGFAADD 52
Query: 157 ------------LLMCSIVWEKSPVLRTYRSKWRVSFSEYRDHFYPPHCHGNILLYSPDV 204
L S + E S V + + +E+ + + GN D+
Sbjct: 53 EPTTPAELVGKFLGYVSSLVEPSKV-GQFDQVLNLCLTEFENCYL----EGN------DI 101
Query: 205 ---VFKLYQHLQTDQE--------YF---WVDDVFITGIVFSKLNLTHAKFSWWPGHDEP 250
KL Q T Y + S L +
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL-FRAVG-----EGNAQ 155
Query: 251 IVSLF----NN---WD-LRK-YDPHKTL--------FALLWEPDFVRLTSSDS------- 286
+V++F N ++ LR Y + L L E +R T
Sbjct: 156 LVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE--LIRTTLDAEKVFTQGL 213
Query: 287 ---TWQSSSDLLPPDD-------STRLINLTNFEFLINPPCLDTVYLVLIHSAPYNYDK- 335
W + P D S LI + Y+V + +
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQL----------AHYVVTAKLLGFTPGEL 263
Query: 336 RRLIR------------------NTW-------GTRVSVYFFIG----ETDPSNQTRLDI 366
R ++ ++W ++V FFIG E P +
Sbjct: 264 RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP----NTSL 319
Query: 367 ESETYHDIVQGRFWD-----SYRNLTYKHTMVFKWVVYNCPHVKYVLKLDDDVFMNVI 419
D ++ S NLT + V +V H L V ++++
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQEQ--VQDYVNKTNSH----LPAGKQVEISLV 371
Score = 32.3 bits (73), Expect = 0.42
Identities = 25/173 (14%), Positives = 42/173 (24%), Gaps = 78/173 (45%)
Query: 2 TSSDSTWQSSSDLLPPDDSTRLINLTNF------------------EFLINPPCL----- 38
S+ T++S LL + T F + LI
Sbjct: 1713 HSTSYTFRSEKGLL---------SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS 1763
Query: 39 -----------------DTVYLVLIHSAPYNYERRRLIRNTWGPRVSLYFFIGETDPS-- 79
V +V + R ++ PR L G ++
Sbjct: 1764 LGEYAALASLADVMSIESLVEVV--------FYRGMTMQVA-VPRDEL----GRSNYGMI 1810
Query: 80 ----NQTRLDIESETYHDIVQGRFWDSYRNLTYKHTMVFKWVV-YNCPHVKYV 127
+ E +V+ K T +V YN + +YV
Sbjct: 1811 AINPGRVAASFSQEALQYVVER---------VGKRTGWLVEIVNYNVENQQYV 1854
Score = 30.8 bits (69), Expect = 1.1
Identities = 32/201 (15%), Positives = 53/201 (26%), Gaps = 83/201 (41%)
Query: 275 EPDFVRLT--SSDSTWQSSSDLLPPDDSTRLINLTNF------------------EFLIN 314
E F + S+ T++S LL + T F + LI
Sbjct: 1704 EKIFKEINEHSTSYTFRSEKGLL---------SATQFTQPALTLMEKAAFEDLKSKGLIP 1754
Query: 315 PPCL----------------------DTVYLV-----LIHSAPYNYDKRRLIRNTWGTRV 347
V +V + A + L R+ +G
Sbjct: 1755 ADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV---PRDELGRSNYG--- 1808
Query: 348 SVYFFIGETDPSNQTRLDIESETYHDIVQGRFWDSYRNLTYKHTMVFKWVV-YNCPHVKY 406
+ +P + E +V+ K T +V YN + +Y
Sbjct: 1809 -----MIAINPG-RVAASFSQEALQYVVER---------VGKRTGWLVEIVNYNVENQQY 1853
Query: 407 VL--KLDD-DVFMNVIQLDEL 424
V L D NV L+ +
Sbjct: 1854 VAAGDLRALDTVTNV--LNFI 1872
>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 = 37.1 bits (85), Expect = 0.013
Identities = 38/279 (13%), Positives = 81/279 (29%), Gaps = 85/279 (30%)
Query: 100 WDSYRNLTY-KHTMVFKWVVYNC--PHV--KY-----VFKLDDDVFMNVIQ--------- 140
WD+++++ K T + + N P K VF + ++
Sbjct: 344 WDNWKHVNCDKLTTIIE-SSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS 402
Query: 141 -----LDELLTRTL----------SPHGTRNLLMCSIVWEKSPVL-RTYRSKWRVSFSEY 184
+++L +L S L + E L R+ + + +
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKL--ENEYALHRSIVDHYNIPKTFD 460
Query: 185 RDHFYPPHCHGNILLYSPDVVFKLYQHLQTDQ-EYF---WVDDVFITGIVFSKLNLTHAK 240
D PP+ + + L ++ F ++D F+ K+ H
Sbjct: 461 SDDLIPPYLDQYFYSH---IGHHLKNIEHPERMTLFRMVFLDFRFLE----QKIR--HDS 511
Query: 241 FSWWPGHDEPIVSLFNNWDLRKYDPHKTLFALLWEPDFVRLTSSDSTWQSSSDLLPPDDS 300
+W I++ L+ Y P+ + +D P
Sbjct: 512 TAW--NASGSILNTLQ--QLKFYKPY--------------ICDND-----------PKYE 542
Query: 301 TRLINLTNF-----EFLINPPCLDTVYLVLIHSAPYNYD 334
+ + +F E LI D + + L+ ++
Sbjct: 543 RLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFE 581
>3o0y_A Lipoprotein; structural genomics, PSI2, MCSG, protein structure
initiativ midwest center for structural genomics, lipid
protein; 1.70A {Colwellia psychrerythraea}
Length = 609
Score = 33.5 bits (76), Expect = 0.15
Identities = 19/128 (14%), Positives = 40/128 (31%), Gaps = 12/128 (9%)
Query: 311 FLINPPCLDTVYLVLIHSAPYNYDKRRLIRNTWGTRVSVYFFIGETDPSNQTRLDIESET 370
F P V + + G++ ++I D + +++ T
Sbjct: 378 FRTTPSYQVEVKSFPVEVQDGAPGGQYTSPAVDGSKPG-IYWINLRDMKANPKFGLKTLT 436
Query: 371 YHDIVQGRFWDS-----------YRNLTYKHTMVFKWVVYNCPHVKYVLKLDDDVFMNVI 419
YH+ G W R + + W +Y+ + ++D F ++
Sbjct: 437 YHEANPGHHWQIALNLDQAELPFLRRIAPYNAYTEGWALYSEQVAYELGMYENDPFGDLG 496
Query: 420 QLDELLTR 427
+L L R
Sbjct: 497 RLQAELFR 504
>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 = 28.4 bits (62), Expect = 3.0
Identities = 7/20 (35%), Positives = 9/20 (45%), Gaps = 1/20 (5%)
Query: 9 QSSSDLLPPDDSTRL-INLT 27
Q+S L D + L I T
Sbjct: 26 QASLKLYADDSAPALAIKAT 45
Score = 28.4 bits (62), Expect = 3.0
Identities = 7/20 (35%), Positives = 9/20 (45%), Gaps = 1/20 (5%)
Query: 289 QSSSDLLPPDDSTRL-INLT 307
Q+S L D + L I T
Sbjct: 26 QASLKLYADDSAPALAIKAT 45
>3csy_I Envelope glycoprotein GP1; glycoprotein-antibody complex, immune
system-viral protein C; HET: NAG BMA MAN; 3.40A {Zaire
ebola virus}
Length = 334
Score = 28.3 bits (62), Expect = 4.4
Identities = 15/91 (16%), Positives = 39/91 (42%), Gaps = 9/91 (9%)
Query: 107 TYKHTMVFKWVVYN--CPHVKYVFKLDDDVFMNV-----IQLDELLTRTLSPHGTRNLLM 159
+ ++ ++ V+Y+F++D+ ++ + Q L T+ G R+
Sbjct: 196 SGYYSTTIRYQATGFGTNEVEYLFEVDNLTYVQLESRFTPQFLLQLNETIYTSGKRSNTT 255
Query: 160 CSIVWEKSPVLRTYRSKWRVSFSEYRDHFYP 190
++W+ +P + T +W +F E + +
Sbjct: 256 GKLIWKVNPEIDTTIGEW--AFWETKKNLTR 284
>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase,
cell division, cell cycle, SEP GTP-binding; 2.20A
{Burkholderia thailandensis}
Length = 223
Score = 28.0 bits (63), Expect = 4.8
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 11/54 (20%)
Query: 301 TRLINLTNFEFLINPPCLDTVYLV-LIHSAP-YNYDKR-RLIRNTWGTRVSVYF 351
T+ IN F + P +LV L P Y Y + + W +S Y
Sbjct: 65 TQHINY----FSVGPAAEPVAHLVDL----PGYGYAEVPGAAKAHWEQLLSSYL 110
Score = 27.7 bits (62), Expect = 6.8
Identities = 14/54 (25%), Positives = 19/54 (35%), Gaps = 11/54 (20%)
Query: 21 TRLINLTNFEFLINPPCLDTVYLV-LIHSAP-YNYERR-RLIRNTWGPRVSLYF 71
T+ IN F + P +LV L P Y Y + W +S Y
Sbjct: 65 TQHINY----FSVGPAAEPVAHLVDL----PGYGYAEVPGAAKAHWEQLLSSYL 110
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
0.324 0.139 0.457
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,892,264
Number of extensions: 403989
Number of successful extensions: 646
Number of sequences better than 10.0: 1
Number of HSP's gapped: 640
Number of HSP's successfully gapped: 18
Length of query: 428
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 332
Effective length of database: 4,021,377
Effective search space: 1335097164
Effective search space used: 1335097164
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 59 (26.5 bits)