RPSBLAST alignment for GI: 254780867 and conserved domain: TIGR01960

>gnl|CDD|131015 TIGR01960, ndhF3_CO2, NAD(P)H dehydrogenase, subunit NdhF3 family. This family represents a subfamily of NAD(P)H dehydrogenase subunit 5, or ndhF. It is restricted to two paralogs in each completed cyanobacterial genome, in which several subtypes of ndhF are found. Included in this family is NdhF3, shown to play a role in high-affinity CO2 uptake in Synechococcus sp. PCC7002. In all cases, neighboring genes include a paralog of ndhD but do include other NAD(P)H dehydrogenase subunits. Instead, genes related to C02 uptake tend to be found nearby. Length = 606
 Score = 55.1 bits (133), Expect = 3e-08
 Identities = 64/315 (20%), Positives = 132/315 (41%), Gaps = 13/315 (4%)

Query: 120 LCMISANDMISF-YMSLELQSFALYVLIAMNRKSVFSIEAALKYFVLGAFSSAFLLYGIS 178
           L  +  +D + F Y+ LE+ + + Y+LI         +  A   F+        LL G+ 
Sbjct: 133 LGGLVLSDSLFFSYVLLEILTLSTYLLIGFWFAQPLVVTGARDAFLTKRVGDLILLMGVV 192

Query: 179 FIYGFTGCTGFSQIATSLFIGHRSFVLIVGVVLILV-GLFFKMALVPFHMWIPDVYEGSP 237
            +    G   +  +A      + +      + L L+ G   K A  P H+W+ +  EG P
Sbjct: 193 ALSPLAGSWNYDDLAQWAATANVNPTTATLLGLALIAGPTGKCAQFPLHLWLDEAMEG-P 251

Query: 238 MFMTAFLATIPKFATTMALCRITSVFWPMLSGLLPIFMCVSIGSM--VLGSVVAIRQKDL 295
              +    ++        L ++  V    LS +    + ++IGS+  + GS++AI Q D+
Sbjct: 252 NPASILRNSVVVATGAWVLIKLQPVL--TLSPVALTAL-IAIGSVTAIGGSLIAIAQIDI 308

Query: 296 KRLMAYSSIGHAGYALIGFSTGMLGIVAMVRYMVIYLIMMIGFFSCILSLRRKDGNNIQN 355
           KR ++YS   + G   I    G   +  ++  ++ + I     F  I S+        Q+
Sbjct: 309 KRALSYSVSAYMGLVFIAVGLGQGDLALLL--LLTHAIAKALLFMSIGSIIWN--TVTQD 364

Query: 356 ISDLAGLSRQDIFLTCALTIFLFSLAGIPPFAGFFGKYFLLISAVKREFYVLAIVALLSS 415
           +++L GL  +      +  +    L  +PP   F+    L         +++ ++ L+ +
Sbjct: 365 LTELGGLWSRRPISGLSFVVGSAGLIAVPPLGSFWAWLKLADGLWATSPWLVGVL-LVVN 423

Query: 416 VISAYYYLRVISIMW 430
           +++A+   RV  +++
Sbjct: 424 LLTAFNLTRVFRLVF 438