RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 022559
(295 letters)
>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 = 45.4 bits (107), Expect = 2e-05
Identities = 37/191 (19%), Positives = 62/191 (32%), Gaps = 67/191 (35%)
Query: 16 PNNYLIT---KS--------RKSNRLSS-------FSQKKP-FTLSFKLGNNKARNGVAF 56
N +++ +S RK+ S FS++K F+ F L F
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF-L-----PVASPF 427
Query: 57 DESAY--EA-ERLSMDAKARDLMAETSK-----RETESG-------AEDDPKSWKWIIRK 101
S A + ++ D ++ +T G + IIR
Sbjct: 428 -HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRL 486
Query: 102 RI-WDLMEVQNIAQNPRPVHHRIPNF-------VGASVAAKNL--TGLEEFRV--AGCVK 149
+ W+ + H I +F +G + +N TG+ RV AG +
Sbjct: 487 PVKWET------TTQFKATH--ILDFGPGGASGLG-VLTHRNKDGTGV---RVIVAGTLD 534
Query: 150 VNPDSPQ--KQ 158
+NPD KQ
Sbjct: 535 INPDDDYGFKQ 545
Score = 29.2 bits (65), Expect = 1.9
Identities = 35/216 (16%), Positives = 61/216 (28%), Gaps = 89/216 (41%)
Query: 101 KRIWDLMEVQNIAQNPRPVHHRIPNFVGASVAAKNLTGLEEFRVAGCVKVNPDSPQKQVR 160
+ +W+ + +H + G F + V NP V
Sbjct: 1643 QDVWNRAD-----------NHFKDTY-----------G---FSILDIVINNP------VN 1671
Query: 161 LLTLSGGKKLLTPQPRLRTGFFSVLDSSMLSPST--------INEACTS----------- 201
L GG+K R+R + +++ +++ INE TS
Sbjct: 1672 LTIHFGGEKGK----RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 202 -----------VGVAKYG--KQIGLDEIIKVDLIVIG-S-------VAV----NPKTGAR 236
+ A + K GL I D G S ++ + ++
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGL---IPADATFAGHSLGEYAALASLADVMSIESLVE 1784
Query: 237 L----GKGEGFA--ELEYGMLRY-MGAIDDSTPVVT 265
+ G A E G Y M AI+ +
Sbjct: 1785 VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAAS 1820
>3ayx_A Membrane-bound hydrogenase large subunit; oxidoreductase,
membrane-bound NI-Fe hydrogenase; 1.18A {Hydrogenovibrio
marinus} PDB: 3ayy_A 3ayz_A 3rgw_L
Length = 596
Score = 32.1 bits (72), Expect = 0.21
Identities = 18/117 (15%), Positives = 30/117 (25%), Gaps = 14/117 (11%)
Query: 168 KKLLTPQPRLRTGFFSVLDSSMLSPSTIN-------EACTSVGVAKYGKQIGLDEIIKVD 220
+ L + D STI E+ + + I D
Sbjct: 436 NRFNAVCRLLDPNHKDITDLKAFLGSTIGRTLARALESEYCGDMMLDDFNQLISNIKNGD 495
Query: 221 LIVIGSVAVNPKTGARLGKGEGFAELEYGMLRYMGAIDDSTPVVTSGKCGFCRIFLP 277
+ +P + KG G G L + I+ GK + +P
Sbjct: 496 SSTANTDKWDPSSWPEHAKGVGTVAAPRGALAHWIVIEK-------GKIKNYQCVVP 545
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 30.1 bits (67), Expect = 0.61
Identities = 11/54 (20%), Positives = 24/54 (44%), Gaps = 9/54 (16%)
Query: 62 EAERLSMDAKARDLMAETSKRETESGAEDDPKSWKWIIRKRIWDLMEVQNIAQN 115
+ +RL + D ++ ++E A+ D + W +R + +E +N N
Sbjct: 94 QRKRL----QELDAASKVMEQEWREKAKKDLEEWN----QRQSEQVE-KNKINN 138
>1vp6_A CNBD, cyclic-nucleotide binding domain of mesorhizobium LOTI CNG
potassium channel; dimer helical bundle beta barrel core
with cyclic AMP bound; HET: CMP; 1.70A {Mesorhizobium
loti} SCOP: b.82.3.2 PDB: 3cl1_A* 2k0g_A* 2kxl_A 3clp_A*
1u12_A 3co2_A
Length = 138
Score = 29.6 bits (67), Expect = 0.68
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 221 LIVIGSVAVNPKTGARLGKGEGFAEL 246
+V GSV+V LG G F E+
Sbjct: 57 FVVEGSVSVATPNPVELGPGAFFGEM 82
>3myr_B Nickel-dependent hydrogenase large subunit; [NIFE] hydrogenase,
photosynthetic P sulfur bacterium, iron-sulfur cluster,
NI-A state; HET: SF4; 2.10A {Allochromatium vinosum}
Length = 561
Score = 30.2 bits (67), Expect = 1.0
Identities = 11/63 (17%), Positives = 19/63 (30%)
Query: 197 EACTSVGVAKYGKQIGLDEIIKVDLIVIGSVAVNPKTGARLGKGEGFAELEYGMLRYMGA 256
E+ V + + + D P + +G G E G L +
Sbjct: 436 ESKILVDAMQGWYDGLIANVKSGDTKTFNETLWEPSSWPSRAQGVGIMEAPRGALGHWIV 495
Query: 257 IDD 259
I+D
Sbjct: 496 IED 498
>2d7i_A Polypeptide N-acetylgalactosaminyltransferase 10; beta trefoil,
rossmann fold; HET: NAG NGA UDP; 2.50A {Homo sapiens}
PDB: 2d7r_A*
Length = 570
Score = 29.8 bits (66), Expect = 1.0
Identities = 28/124 (22%), Positives = 42/124 (33%), Gaps = 7/124 (5%)
Query: 47 NNKARNGVAFDESAYEAERLSMDAKARDLMAETSKRETESGAEDDPKSWKWIIRKRIWDL 106
N K V DE A + + + +++ S + KS+KW + K WDL
Sbjct: 356 NLKRVAEVWMDEYAEYIYQRRPEYRHLSAGDVAVQKKLRS--SLNCKSFKWFMTKIAWDL 413
Query: 107 MEVQNIAQNPRPVHHRIPNFVGAS--VAAKNLTGLEEFRVAGCV--KVNPDSPQKQVRLL 162
+ + P I N VG K+ R+ GCV + QV
Sbjct: 414 PKFYPPVEPPAAAWGEIRN-VGTGLCADTKHGALGSPLRLEGCVRGRGEAAWNNMQVFTF 472
Query: 163 TLSG 166
T
Sbjct: 473 TWRE 476
>1qgi_A Protein (chitosanase); hydrolase, chitosan degradation; HET: GCS
NAG; 1.60A {Bacillus circulans} SCOP: d.2.1.7 PDB:
2d05_A
Length = 259
Score = 28.6 bits (63), Expect = 2.4
Identities = 13/69 (18%), Positives = 26/69 (37%), Gaps = 4/69 (5%)
Query: 38 PFTLSFKLGNNKARNGVAFDESAYEAERLSMDAKARDLMAETSKRETESGAEDDPKSWKW 97
S L AR+G + +E + + R L+ +T+K ++ K W
Sbjct: 179 ATGGSDTLQGLLARSGSSSNEKTF----MKNFHAKRTLVVDTNKYNKPPNGKNRVKQWDT 234
Query: 98 IIRKRIWDL 106
++ +L
Sbjct: 235 LVDMGKMNL 243
>3uqy_L Hydrogenase-1 large chain; membrane-bound hydrogenase,
oxidoreductase; HET: LMT; 1.47A {Escherichia coli} PDB:
3usc_L* 3use_L*
Length = 582
Score = 28.7 bits (63), Expect = 3.1
Identities = 16/63 (25%), Positives = 24/63 (38%)
Query: 197 EACTSVGVAKYGKQIGLDEIIKVDLIVIGSVAVNPKTGARLGKGEGFAELEYGMLRYMGA 256
EA + G +Y + + +L + P T +G GF E G L + A
Sbjct: 458 EAQWAAGKLQYFFDKLMTNLKNGNLATASTEKWEPATWPTECRGVGFTEAPRGALGHWAA 517
Query: 257 IDD 259
I D
Sbjct: 518 IRD 520
>1cc1_L Hydrogenase (large subunit); NI-Fe-Se hydrogenase, oxidoreductase;
2.15A {Desulfomicrobium baculatum} SCOP: e.18.1.1
Length = 498
Score = 28.0 bits (62), Expect = 4.8
Identities = 11/59 (18%), Positives = 17/59 (28%), Gaps = 7/59 (11%)
Query: 219 VDLIVIGSVAVNPKTGARLGKGEGFAELEYGMLRYMGAIDDSTPVVTSGKCGFCRIFLP 277
+ + G+ +G GF E G L + I D K +I
Sbjct: 396 LKQVQPGAETYVKSEIPDAAEGTGFTEAPRGALLHYLKIKD-------KKIENYQIVSA 447
>3odu_A C-X-C chemokine receptor type 4, lysozyme chimera; structural
genomics, PSI-2, protein structure initiative; HET: ITD
OLC OLA; 2.50A {Homo sapiens} PDB: 3oe8_A* 3oe6_A*
3oe0_A* 3oe9_A* 2k03_B* 2k04_B 2k05_B*
Length = 502
Score = 27.6 bits (61), Expect = 5.2
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 258 DDSTPVVTSGKCGFCRIFLPLFYLVLFIL 286
P F +IFLP Y ++F+
Sbjct: 33 SMKEPCFREENANFNKIFLPTIYSIIFLT 61
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A
{Human herpesvirus 1} PDB: 1dml_B*
Length = 1193
Score = 27.1 bits (59), Expect = 8.3
Identities = 15/74 (20%), Positives = 23/74 (31%)
Query: 122 RIPNFVGASVAAKNLTGLEEFRVAGCVKVNPDSPQKQVRLLTLSGGKKLLTPQPRLRTGF 181
R + E+ R G + P+ ++ G K+L P
Sbjct: 611 RPAAAREDEERPEEEGEDEDEREEGGGEREPEGARETAGRHVGYQGAKVLDPTSGFHVNP 670
Query: 182 FSVLDSSMLSPSTI 195
V D + L PS I
Sbjct: 671 VVVFDFASLYPSII 684
>3ixz_B Potassium-transporting ATPase subunit beta; ION pump, H+,
K+-ATPase, P-type ATPase, membrane protein, hydrolase,
aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB:
2xzb_B
Length = 290
Score = 26.9 bits (59), Expect = 8.7
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 265 TSGKCGFCRIFLPLFYLVLFILFVYCI 291
T + + ++ FY+V+ +F CI
Sbjct: 33 TLSRWVWISLYYVAFYVVMSGIFALCI 59
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
0.319 0.136 0.396
Gapped
Lambda K H
0.267 0.0470 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,474,163
Number of extensions: 271726
Number of successful extensions: 535
Number of sequences better than 10.0: 1
Number of HSP's gapped: 534
Number of HSP's successfully gapped: 15
Length of query: 295
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 202
Effective length of database: 4,105,140
Effective search space: 829238280
Effective search space used: 829238280
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: 57 (26.4 bits)